STS Identifier | Location | Multi-copy | STS Start | STS End | STS Length | Primer 1 | Primer 2 | PCR Conditions | GenBank | Co-amplified Loci |
sY1247 | Boundary between PAR1 and MSY | | 2781333 | 2781765 | 433 | GAACTCTGCAAACCTCCTGG | TTTTGAGGCGGAGTCTCG | Standard PCR | G75493 | |
sY14 | SRY exon 1 | | 2787066 | 2787535 | 470 | GAATATTCCCGCTCTCCGGA | GCTGGTGCTCCATTCTTGAG | Standard PCR | G38356 | |
sY274 | RPS4Y1 intron 4 | | 2853034 | 2853394 | 361 | TTAAGGGGACAGTATTTCAACTTC | CCACATTTAAACTGAGTACAGTCC | Standard PCR | G38351 | |
sY238 | ZFY intron 2 | | 2978076 | 2978433 | 358 | AACAAGTGAGTTCCACAGGG | GCAAAGCAGCATTCAAAACA | Standard PCR | G38352 | |
sY1254 | TGIF2LY exon 1 | | 3579511 | 3579891 | 381 | GACCAATTTGTCTTTGTTGCG | GCTGCTGAAGTCGGCGTA | Standard PCR | G75612 | |
sY1240 | PCDH11Y intron 3 | | 5398018 | 5398402 | 385 | GGGTCCTAGATAGGCTCCAAG | TTCATGTTGGCAGTGATTGG | Standard PCR | G75486 | |
sY1256 | TSPY intron 5 | * | 6248351 | 6248610 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 9359931-9360190, 9380209-9380468, 9400555-9400814, 9469087-9469346, 9489419-9489678, 9509701-9509960, 9530014-9530273 |
sY276 | AMELY exon 4/intron 4 | | 6868638 | 6868853 | 216 | CCTACCGCATCAGTGAATTTC | TCTGTATGTGGAGTACACATGG | Standard PCR | G38362 | |
sY1238 | TBL1Y exon 11 | | 7071420 | 7071794 | 375 | GGTGTGCTAACATTGCATGG | TTTGTTCCATTTCAGAGCGA | Standard PCR | G75611 | |
sY637 | PRKY 5' upstream of gene | | 7228480 | 7228772 | 293 | CCTGCCTTTTTTAGTTTCCAGCA | TACTGTGATAGGTAGAATAATGGC | Standard PCR | TranD in Schiebel et al, 1997 | |
sY1319 | PRKY 3' UTR | | 7377942 | 7378244 | 303 | ACCTGTCTGGGAAACACCTC | GAGCCCTACAACCAGCTTCA | Standard PCR | BV210882 | |
sY1256 | TSPY intron 5 | * | 9359931 | 9360190 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 6248351-6248610, 9380209-9380468, 9400555-9400814, 9469087-9469346, 9489419-9489678, 9509701-9509960, 9530014-9530273 |
sY1256 | TSPY intron 5 | * | 9380209 | 9380468 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 6248351-6248610, 9359931-9360190, 9400555-9400814, 9469087-9469346, 9489419-9489678, 9509701-9509960, 9530014-9530273 |
sY1256 | TSPY intron 5 | * | 9400555 | 9400814 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 6248351-6248610, 9359931-9360190, 9380209-9380468, 9469087-9469346, 9489419-9489678, 9509701-9509960, 9530014-9530273 |
sY1256 | TSPY intron 5 | * | 9469087 | 9469346 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 6248351-6248610, 9359931-9360190, 9380209-9380468, 9400555-9400814, 9489419-9489678, 9509701-9509960, 9530014-9530273 |
sY1256 | TSPY intron 5 | * | 9489419 | 9489678 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 6248351-6248610, 9359931-9360190, 9380209-9380468, 9400555-9400814, 9469087-9469346, 9509701-9509960, 9530014-9530273 |
sY1256 | TSPY intron 5 | * | 9509701 | 9509960 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 6248351-6248610, 9359931-9360190, 9380209-9380468, 9400555-9400814, 9469087-9469346, 9489419-9489678, 9530014-9530273 |
sY1256 | TSPY intron 5 | * | 9530014 | 9530273 | 260 | CCCAGTGAAGAATCGTCCAT | GCTAACAAGATGCACTGGGC | Standard PCR | G75613 | 6248351-6248610, 9359931-9360190, 9380209-9380468, 9400555-9400814, 9469087-9469346, 9489419-9489678, 9509701-9509960 |
sY1250 | Proximal boundary of TSPY array | | 9562173 | 9562665 | 493 | TTTTTCTAACCTTGCCTGCG | TGCAGAGAAGCAGCCTACAA | Standard PCR | G75495 | |
sY78 | Alpha-satellite (DYZ3) sequences in centromeric heterochromatin | * | 10594268 | 10594441 | 174 | TCCTTTTCCACAATAGACGTCA | GGAAGTATCTTCCCTTAAAAGCTATG | Standard PCR | G38359 | heterochromatic repeats in centromere |
sY1251 | Boundary between centromere and Yq | | 11749310 | 11749731 | 422 | GACTGGAGTGGAACGGTCTC | TCACTTCCCTCCGATTTTCT | Standard PCR | G75496 | |
sY1317 | USP9Y exon 3 | | 12709196 | 12709682 | 487 | GAGATTACAGGCATGCACCA | CCACACTTAGCCCACAGTCA | Standard PCR | BV210880 | |
sY1316 | USP9Y exon 26 | | 12791369 | 12791831 | 463 | AAGGCAGGTCTGATGCATGT | AAAGAAAGCTGCCTCATAGCA | Standard PCR | BV210879 | |
sY1234 | DDX3Y (DBY) exon 9 | | 12914758 | 12915107 | 350 | TTACCCCTTTCACCCACTGA | CCATAAACTACACAAGGACGAACT | Standard PCR | BV210873 | |
sY1231 | UTY exon 8 | | 13393737 | 13394028 | 292 | TTGCACCCGTAGTCAAATGT | ACCCACAACTCAAATCGTCT | Standard PCR | BV210871 | |
sY1230 | TMSB4Y exon 1/intron 1 | | 13704013 | 13704586 | 574 | CTCTTCCAAGCCAGCCTTTA | AACCTTTGCAAGCCACATTC | Standard PCR | BV210870 | |
sY90 | KALP intron 1 | | 13755616 | 13755791 | 176 | CAGTGCCCCATAACACTTTC | ATGGTAATACAGCAGCTCGC | Standard PCR | G38357 | |
sY1220 | VCY exon 2 | * | 13985905 | 13986129 | 225 | GAAGGGAGAAGCAGTTCGTG | CTCAGTGGTTCCTCCAGCTC | Standard PCR | BV210869 | 14056601-14056825 |
sY1220 | VCY exon 2 | * | 14056601 | 14056825 | 225 | GAAGGGAGAAGCAGTTCGTG | CTCAGTGGTTCCTCCAGCTC | Standard PCR | BV210869 | 13985905-13986129 |
sY1239 | NLGN4Y exon 1 | | 14522598 | 14523063 | 466 | CCTAGCTCTCTTTTTCTTGCAG | CAAATATCGCCAGTGAGGCT | Standard PCR | BV210876 | |
sY210 | STSP intron 5 | | 15554250 | 15554514 | 265 | ATCACTTGGCAGCTTTTCC | GCACTGCAACTTTTATGCCT | Standard PCR | G38361 | |
sY1235 | XKRY exon 1 | * | 17769441 | 17769640 | 200 | GACACCATGGCTGGAGTTTT | GGATTGTATGTCCCACCTCG | Standard PCR | BV210874 | 18136369-18136568 |
sY1260 | CDY2 exon 1 | * | 17879549 | 17880039 | 491 | TTTCACTACACCAGTGGTGACC | CTGGCAGCAAATAACTTGCA | Standard PCR | BV210877 | 18025968-18026458 |
sY1260 | CDY2 exon 1 | * | 18025968 | 18026458 | 491 | TTTCACTACACCAGTGGTGACC | CTGGCAGCAAATAACTTGCA | Standard PCR | BV210877 | 17879549-17880039 |
sY1235 | XKRY exon 1 | * | 18136369 | 18136568 | 200 | GACACCATGGCTGGAGTTTT | GGATTGTATGTCCCACCTCG | Standard PCR | BV210874 | 17769441-17769640 |
sY1237 | HSFY exon 2 | * | 18547913 | 18548062 | 150 | TAGAGCAGGGGCTAACATGG | ATGGGGACAGATGAATTTGC | Standard PCR | BV210875 | 18772344-18772493 |
sY1237 | HSFY exon 2 | * | 18772344 | 18772493 | 150 | TAGAGCAGGGGCTAACATGG | ATGGGGACAGATGAATTTGC | Standard PCR | BV210875 | 18547913-18548062 |
sY121 | Immediately distal to palindrome P4 | | 18890192 | 18890381 | 190 | AGTTCACAGAATGGAGCCTG | CCTGTGACTCCAGTTTGGTC | Standard PCR | G38341 | |
sY1322 | Between CYorf15A and CYorf15B | | 19590158 | 19590687 | 530 | TGGAAACATTCTCAACAGGGA | GGCATTTCTCGCATGAGTTT | Standard PCR | BV210883 | |
sY280 | JARID1D (SMCY) exon 9/intron 9 | | 19732108 | 19732716 | 609 | AACTGTACTCCTGGGTAGCCTG | CTCCCGTGGGGATGAAGATAATA | Standard PCR | SH34Y/SH35Y in Agulnik et al, 1994 | |
sY1233 | EIF1AY exon 1 | | 20575615 | 20576037 | 423 | TCTCCGGTATCCTGATGGAG | AAATAGGGCATTCCCAGCTC | Standard PCR | BV210872 | |
sY1682 | RPS4Y2 exon 1 | | 20756117 | 20756553 | 437 | GGTTGCACCGTAAAAGGAGA | GTCTGTCAAGACAGCGTCCA | Standard PCR | BV444811 | |
sY627 | RBMY1 exon 12 | * | 21501724 | 21501827 | 104 | GCACCTGCCACGCATATAGT | GCAAACATGCTCACGATCAC | Standard PCR | G67175 | 21525264-21525367, 21548804-21548907, 22417359-22417462, 21880495-21880598, 21904037-21904140, 22168961-22169064 |
sY627 | RBMY1 exon 12 | * | 21525264 | 21525367 | 104 | GCACCTGCCACGCATATAGT | GCAAACATGCTCACGATCAC | Standard PCR | G67175 | 21501724-21501827, 21548804-21548907, 22417359-22417462, 21880495-21880598, 21904037-21904140, 22168961-22169064 |
sY627 | RBMY1 exon 12 | * | 21548804 | 21548907 | 104 | GCACCTGCCACGCATATAGT | GCAAACATGCTCACGATCAC | Standard PCR | G67175 | 21501724-21501827, 21525264-21525367, 22417359-22417462, 21880495-21880598, 21904037-21904140, 22168961-22169064 |
sY142 | Proximal to AZFc | | 21831728 | 21831923 | 196 | AGCTTCTATTCGAGGGCTTC | CTCTCTGCAATCCCTGACAT | Standard PCR | G38345 | |
sY627 | RBMY1 exon 12 | * | 21880495 | 21880598 | 104 | GCACCTGCCACGCATATAGT | GCAAACATGCTCACGATCAC | Standard PCR | G67175 | 21501724-21501827, 21525264-21525367, 21548804-21548907, 22417359-22417462, 21904037-21904140, 22168961-22169064 |
sY627 | RBMY1 exon 12 | * | 21904037 | 21904140 | 104 | GCACCTGCCACGCATATAGT | GCAAACATGCTCACGATCAC | Standard PCR | G67175 | 21501724-21501827, 21525264-21525367, 21548804-21548907, 22417359-22417462, 21880495-21880598, 22168961-22169064 |
sY1258 | Boundary between unique sequence u1 and blue amplicon b1 in AZFc | | 21924767 | 21925734 | 968 | AACCCCATCTCTAGCAAAAATATG | TAGGTGACAGGGCAGGATTC | Standard PCR | G75499 | |
sY1161 | PRY intron 2 | * | 22092892 | 22093221 | 330 | CGACACTTTTGGGAAGTTTCA | TTGTGTCCAGTGGTGGCTTA | Standard PCR | G66148 | 22493184-22493513 |
sY627 | RBMY1 exon 12 | * | 22168961 | 22169064 | 104 | GCACCTGCCACGCATATAGT | GCAAACATGCTCACGATCAC | Standard PCR | G67175 | 21501724-21501827, 21525264-21525367, 21548804-21548907, 22417359-22417462, 21880495-21880598, 21904037-21904140 |
sY1197 | Internal boundary of palindrome P3 | | 22377471 | 22377923 | 453 | TCATTTGTGTCCTTCTCTTGGA | CTAAGCCAGGAACTTGCCAC | Standard PCR | G67168 | |
sY627 | RBMY1 exon 12 | * | 22417359 | 22417462 | 104 | GCACCTGCCACGCATATAGT | GCAAACATGCTCACGATCAC | Standard PCR | G67175 | 21501724-21501827, 21525264-21525367, 21548804-21548907, 21880495-21880598, 21904037-21904140, 22168961-22169064 |
sY1161 | PRY intron 2 | * | 22493184 | 22493513 | 330 | CGACACTTTTGGGAAGTTTCA | TTGTGTCCAGTGGTGGCTTA | Standard PCR | G66148 | 22092892-22093221 |
sY1191 | Unique sequence u3 in AZFc | | 22729473 | 22729857 | 385 | CCAGACGTTCTACCCTTTCG | GAGCCGAGATCCAGTTACCA | Standard PCR | G73809 | |
sY1035 | BPY2 intron 5 | * | 22997073 | 22997420 | 348 | TCAGTCCACCTATGTGCTGG | ATTCCTTTCCTTGGGTGGAT | Standard PCR | BV210868 | 25038946-25039293, 24630815-24631162 |
sY1318 | DAZ exon 11 | * | 23134956 | 23135486 | 531 | TGATATCAGGTGATGCGTCC | TGGCGTTAAGTAAACCTGGG | Standard PCR | BV210881 | 23285225-23285755, 24900899-24901429, 24768680-24769210 |
sY254 | DAZ exon 3 | * | 23170046 | 23170425 | 380 | GGGTGTTACCAGAAGGCAAA | GAACCGTATCTACCAAAGCAGC | Standard PCR | G38349 | 23226429-23226808, 24840816-24841195, 24851664-24852043, 23180886-23181265, 23191734-23192113, 24806117-24806496 |
sY254 | DAZ exon 3 | * | 23180886 | 23181265 | 380 | GGGTGTTACCAGAAGGCAAA | GAACCGTATCTACCAAAGCAGC | Standard PCR | G38349 | 23226429-23226808, 24840816-24841195, 24851664-24852043, 23170046-23170425, 23191734-23192113, 24806117-24806496 |
sY254 | DAZ exon 3 | * | 23191734 | 23192113 | 380 | GGGTGTTACCAGAAGGCAAA | GAACCGTATCTACCAAAGCAGC | Standard PCR | G38349 | 23226429-23226808, 24840816-24841195, 24851664-24852043, 23170046-23170425, 23180886-23181265, 24806117-24806496 |
sY254 | DAZ exon 3 | * | 23226429 | 23226808 | 380 | GGGTGTTACCAGAAGGCAAA | GAACCGTATCTACCAAAGCAGC | Standard PCR | G38349 | 24840816-24841195, 24851664-24852043, 23170046-23170425, 23180886-23181265, 23191734-23192113, 24806117-24806496 |
sY1318 | DAZ exon 11 | * | 23285225 | 23285755 | 531 | TGATATCAGGTGATGCGTCC | TGGCGTTAAGTAAACCTGGG | Standard PCR | BV210881 | 24900899-24901429, 23134956-23135486, 24768680-24769210 |
sY1291 | Red/gray boundary in AZFc | | 23358923 | 23359449 | 527 | TAAAAGGCAGAACTGCCAGG | GGGAGAAAAGTTCTGCAACG | Standard PCR | G72340 | |
sY1125 | Blue/gray boundaries in AZFc | * | 23473885 | 23474167 | 283 | GTGGGGGTTTCACATTATGG | GGTCACAGACTCACATTTAAGCA | Standard PCR | G67164 | 26196444-26196726 |
sY1054 | Blue/yellow boundaries in AZFc | * | 23702573 | 23702912 | 340 | ACCTAAGGGAACCCAGGAGA | CGACACTTTTGGGAAGTTTCA | Standard PCR | G67163 | 25967162-25967501 |
sY1190 | Yellow amplicon in AZFc | * | 23816008 | 23816673 | 666 | TTGTGAAATGGTGGTGATGG | CTGATTTGGAAACTCGTCCC | Standard PCR | G67165 | 25853416-25854081 |
sY1263 | CDY1 exon 1/intron 1 | * | 24045787 | 24046253 | 467 | TTAAGGAGCTTGCCTCATACAATC | TAGAGCTTGCAAGAAGAGTCTGTT | Standard PCR | BV210878 | 25623878-25624344 |
sY1206 | Yellow/green boundaries in AZFc | * | 24380299 | 24380692 | 394 | ATTGATCTCCTTGGTTCCCC | GACATGTGTGGCCAATTTGA | Standard PCR | G67171 | 25289447-25289840 |
sY1035 | BPY2 intron 5 | * | 24630815 | 24631162 | 348 | TCAGTCCACCTATGTGCTGG | ATTCCTTTCCTTGGGTGGAT | Standard PCR | BV210868 | 25038946-25039293, 22997073-22997420 |
sY1318 | DAZ exon 11 | * | 24768680 | 24769210 | 531 | TGATATCAGGTGATGCGTCC | TGGCGTTAAGTAAACCTGGG | Standard PCR | BV210881 | 23285225-23285755, 24900899-24901429, 23134956-23135486 |
sY254 | DAZ exon 3 | * | 24806117 | 24806496 | 380 | GGGTGTTACCAGAAGGCAAA | GAACCGTATCTACCAAAGCAGC | Standard PCR | G38349 | 23226429-23226808, 24840816-24841195, 24851664-24852043, 23170046-23170425, 23180886-23181265, 23191734-23192113 |
sY254 | DAZ exon 3 | * | 24840816 | 24841195 | 380 | GGGTGTTACCAGAAGGCAAA | GAACCGTATCTACCAAAGCAGC | Standard PCR | G38349 | 23226429-23226808, 24851664-24852043, 23170046-23170425, 23180886-23181265, 23191734-23192113, 24806117-24806496 |
sY254 | DAZ exon 3 | * | 24851664 | 24852043 | 380 | GGGTGTTACCAGAAGGCAAA | GAACCGTATCTACCAAAGCAGC | Standard PCR | G38349 | 23226429-23226808, 24840816-24841195, 23170046-23170425, 23180886-23181265, 23191734-23192113, 24806117-24806496 |
sY1318 | DAZ exon 11 | * | 24900899 | 24901429 | 531 | TGATATCAGGTGATGCGTCC | TGGCGTTAAGTAAACCTGGG | Standard PCR | BV210881 | 23285225-23285755, 23134956-23135486, 24768680-24769210 |
sY1035 | BPY2 intron 5 | * | 25038946 | 25039293 | 348 | TCAGTCCACCTATGTGCTGG | ATTCCTTTCCTTGGGTGGAT | Standard PCR | BV210868 | 22997073-22997420, 24630815-24631162 |
sY1206 | Yellow/green boundaries in AZFc | * | 25289447 | 25289840 | 394 | ATTGATCTCCTTGGTTCCCC | GACATGTGTGGCCAATTTGA | Standard PCR | G67171 | 24380299-24380692 |
sY1263 | CDY1 exon 1/intron 1 | * | 25623878 | 25624344 | 467 | TTAAGGAGCTTGCCTCATACAATC | TAGAGCTTGCAAGAAGAGTCTGTT | Standard PCR | BV210878 | 24045787-24046253 |
sY1190 | Yellow amplicon in AZFc | * | 25853416 | 25854081 | 666 | TTGTGAAATGGTGGTGATGG | CTGATTTGGAAACTCGTCCC | Standard PCR | G67165 | 23816008-23816673 |
sY1054 | Blue/yellow boundaries in AZFc | * | 25967162 | 25967501 | 340 | ACCTAAGGGAACCCAGGAGA | CGACACTTTTGGGAAGTTTCA | Standard PCR | G67163 | 23702573-23702912 |
sY1125 | Blue/gray boundaries in AZFc | * | 26196444 | 26196726 | 283 | GTGGGGGTTTCACATTATGG | GGTCACAGACTCACATTTAAGCA | Standard PCR | G67164 | 23473885-23474167 |
sY1201 | Distal boundary of gray amplicon in AZFc | | 26311169 | 26311845 | 677 | CCGACTTCCACAATGGCT | GGGAGAAAAGTTCTGCAACG | Standard PCR | G67170 | |
sY1246 | Proximal portion of distal Yq heterochromatin | * | 26660612 | 26660780 | 169 | ATCGTTTTGAATGGCGTCAA | CTGCACCACTCCAATCCAA | Standard PCR | G75492 | heterochromatic repeats in distal Yq |
sY160 | Satellite-3 (DYZ1) sequences in distal Yq heterochromatin | * | 50000000 | 50000235 | 236 | TACGGGTCTCGAATGGAATA | TCATTGCATTCCTTTCCATT | Standard PCR | G38343 | heterochromatic repeats in distal Yq |
sY1166 | In MSY between distal Yq heterochromatin and PAR2 | | 56834761 | 56834987 | 227 | AGTCGGAGTCGGAGTGTGAT | ATTCCATTGCTTTCCATTGC | Standard PCR | G66149 | |
sY1273 | Near boundary between MSY and PAR2 | | 56886679 | 56887323 | 645 | GAGCTGCAACATAACAGGCA | AGGGGAACATCACACTCTGG | Standard PCR | G75500 | |