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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT

Basic information

species Physcomitrella patens
transcript PP1S81_172V6.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os02g01560.1 (Oryza sativa), 3'ss of exon 1
gaggttggtttcgtagcatatttttgaaat-gtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
 |  |||   |   |   | |  ||| | |  ||   || |  | | |  || | |  || |||  | || |  | |  ||||   |     |     |||||  | ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||  | ||||| || |||
-accttgtgatttcattgtgtcattgtattcatgtcgtgctactctgcagttatgttgttatttgtgctgatcatttccttttcccttaccgtaataccagGCAAGGGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGTGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os01g25610.1 (Oryza sativa), 3'ss of exon 1
gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttt--tttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
 ||  |  | | || | |     ||  ||   ||       || |     | | |  ||  | || |  ||   ||| |     ||||||||| |    |||||  | || |||||||||||| | ||||||||||||||||||||||| ||||||||||||||  | || || || |||
-agaattatattgttgtactggcttttaagaagcatcacaattctgtgagtatgtggttaataacatacttaacgttgtcaacctgttattttctgaa-cagGCGAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCGCCCAAGCACTGGATGCTCGACAAGCTCGGCGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: LOC_Os05g30530.1 (Oryza sativa), 3'ss of exon 1
-----gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
         |||    | |  ||| | | | |  | ||   || ||     || |   | || | ||||  |||||       | |   ||  |  ||  |  ||||  | ||||||||||||||| |||||||||||||||| ||||  ||||||||||| |||||  | ||||| || |||
tttactgtattgcccccttttcatttctctca--tttggattggttaaacgctatcaat-atgtatttatcttgttaaaagaatctccttttctgcttaat--agGCGAGGGGTTTGAAGAAGCATCTGAAGAGGCTCAATGCCCCCAGCCATTGGATGCTTGACAAGCTTGGTGGAGCATTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G158584_T04 (Zea mays), 3'ss of exon 5
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||    |||  ||    |    ||| |       |   |||  |  |  | | | || || | || ||| |  ||   |||||||    | |||||| | || ||||||||||| |||||||||||||||||||||||||||||||||||||||||  | || || || |||
-ctgttacttttaacagctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G469061_T01 (Zea mays), 3'ss of exon 2
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||    |||  ||    |    ||| |       |   | |  |  |  | | | || || | || ||| |  ||   |||||||    | |||||| | || ||||||||||| |||||||||||||||||||||||||||||||||||||||||  | ||||| || |||
-ctgttacttttaacagctaatgcaatctggatgagtcacctatgaatgccatactggaatctgttgcgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGTGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G176641_T01 (Zea mays), 3'ss of exon 3
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||    |||  |     |    ||| |       |   | |  |  |  | | | || || | || ||| |  ||   |||||||    | |||||| | || ||||||||||| |||||||||||||||||||||||||||||||||||||||||  | || || || |||
-ctgttacttttaacagctaaagcaatctggatgagtcacctatgaatgccatactggaatctgttgcgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G158584_T05 (Zea mays), 3'ss of exon 1
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT----------------------
   |||  |||    |||  ||    |    ||| |       |   |||  |  |  | | | || || | || ||| |  ||   |||||||    | |||||| | || ||||||||||| |||||||||||||||||||||||||||||||||||||||||  | || || || |||                      
-ctgttacttttaacagctaatgcaatctggatgagtcacctatgaattccatactggaatctgttgcgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTTGTAAGTAAAAAATATTTTCTAG

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G035017_T01 (Zea mays), 3'ss of exon 1
gaggttggtttcg-tagcatatttttgaaatgtgcgctgattttt--ttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||    |||  ||      |   || |  |  | |   | |     |  | | | ||  | | || ||| |  ||   |||||||    | |||||| | || ||||||||||| |||||||||||||||||||||||||||||||||||||||||  | || || || |||
-ctgttacttttaacagctgatgcaatcaggatgagtcgcctatgaatgccccactcgaatctgttgtgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G542753_T01 (Zea mays), 3'ss of exon 5
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||    |||  ||    |    ||| |       |   | |  |  |  | | | || || | || ||| |  ||   |||||||    | |||||| | || | ||||||||| |||||||||||||||||||||||||||||||||||||||||  | || || || |||
-ctgttacttttaacagctaatgcaatctggatgagtcacctatgaatgccatactggaatctgttgcgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATCGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G301096_T01 (Zea mays), 3'ss of exon 2
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttc-agGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||    |||  ||    |   |||| |       |   | |  |  |  | ||| || || | || ||| |  ||   ||||||||    || ||||| | || ||||||||||| |||||||||||||||||||||||||||||||||||| ||||  | ||  | || |||
--tgttacttttaacagctaatgcaatctgaatgagtcacctatgaatgccatactggaatttgttgcgcttttgttgatcatt--attatttttacaatctagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCAACAAGCTTGGCAGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G125271_T01 (Zea mays), 3'ss of exon 1
-gaggttggtttcgtagcatatttttgaaatgtg-cgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
    |  ||  || |  | |    |     || |  ||  ||  |     ||  |  | | | ||  | | || |  |   | || ||  |||    | |||||| | || ||||||||||||||||||||||||||||| ||||||||||||||||| |||||  | || || || |||
ttgagaaggaatcattccgtgaaatcaggttgcgatgcctatgataacacttgctggaatctgttgtgcttttctgatcactgttttt--tttgcaatccagGCTAGAGGATTGAAGAAGCATTTGAAGAGGCTCAATGCCCCCAAGCATTGGATGCTGGACAAGCTTGGCGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G060986_T01 (Zea mays), 3'ss of exon 5
gaggttggtttcgtagcatatttttgaaatgtgcgctgatt-tttttcttttttttatttttttacgttg--tttttgtttttt-ttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||  || ||   |  || ||| ||      |    | |   |    || |    || ||||   |||||||  |  || |||||||    | |||||| | || ||||||||||| |||||||||||||||| ||||||||||||||||||||| ||  | ||  | || |||
-ttgttacttt--taaca-gctaatgcaatctggatgagtcacctatgaatgccatactggaatatgttgcgcttttgttgatcattattattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGGCTCAATGTGCCCAAGCATTGGATGCTCGATAAGCTTGGCAGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GRMZM2G159228_T01 (Zea mays), 3'ss of exon 1
gaggttggtttcg-tagc--atatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   |||  |||    |||  ||    |    ||| |       |   | |  |  |  | | | || || | || ||| |  ||   |||||||    | |||||| | || ||||||||||| |||||||| |||| ||| |||||||||||||||||||||||  | || || || |||
-ctgttacttttaacagctgatgcaatctggatgagtcacctatgaatgccatactggaatctgttgcgcttttgttgatcatt--attattttgcaatccagGCTAGGGGATTGAAGAAGCACTTGAAGAGCCTCAGTGCTCCCAAGCATTGGATGCTCGACAAGCTTGGCGGAGCTTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA02G05370.1 (Glycine max), 3'ss of exon 1
--gaggttgg--tttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   | | ||   |||  | |  |||| ||  | |      |||   ||||  |||  ||| ||| |  |   | |||    ||   | |   |  ||    |||||  | || ||||||||||||||||||||||| ||||| || |||||||||||||| |||||| ||||||| || |||
gtaatgctgagttttatttgtttattgttagacttgatattgaaggtttt--tttaattaatttgtgtctgagctttgaacttcaatata--tgattgtaacagGCGAGAGGATTGAAGAAGCATTTGAAGAGGCTTAATGCCCCAAAGCATTGGATGCTTGACAAACTGGGTGGTGCATTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA14G06170.1 (Glycine max), 3'ss of exon 1
gaggttg-gtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
 |  | | |||| |||    |||| |    |   |  || | |||   ||||||||||||| |      | |||    |||| || |  |  ||  | |||||| | ||  | |||||||||||||| ||||||||||| || |||||||||||||| |||||| ||||||| || |||
aaactagcgttttgtatatgatttgttctttagac-ttgctgtttagattttttttattttgtgcttgagctttaaacttttgtgcttatgattgttacagGCTAGGGGACTAAAGAAGCATTTGAAAAGGCTCAATGCTCCTAAGCATTGGATGCTTGACAAACTGGGTGGTGCATTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA02G43080.2 (Glycine max), 3'ss of exon 1
--gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
      | ||||| |   ||| ||  ||  |     |||| ||   |  |||| |||| ||| |      |||||    |||  || |  |   |  | |||||| | || |||||||||||| | |||||||||||||| || |||||||||||||| |||||| ||||||| || |||
ctaccataggttttg-gtcat-ttaatgtcagacttgctgtttgaatctttttgtttaatttgtgtttgagttttaaactttcgtgcttatgactgttacagGCTAGGGGATTGAAGAAGCATCTCAAGAGGCTCAATGCTCCTAAGCATTGGATGCTTGACAAACTGGGTGGTGCATTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA16G23730.1 (Glycine max), 3'ss of exon 1
---gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatt--tttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   ||| ||  |||    |  || | ||  | |      | |   |||| | ||||| |||  |||||   |    ||||   ||    ||||  || |   |||||  | || || ||||||||| |||||||||| ||||| || |||||||||||||| |||||| ||||||| || |||
cccgagttttattt----gtttagtgttagatttgatattcaagattttttatttttaattaatttttgtttgagctttgaacttcaatttatgattgtaa-cagGCGAGAGGATTAAAGAAGCATCTGAAGAGGCTTAATGCCCCAAAGCATTGGATGCTTGACAAACTGGGTGGTGCATTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: GLYMA03G06440.1 (Glycine max), 3'ss of exon 1
-gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttattttttt---cttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
   | || |||  || |    |   ||   | |  | |     | |    | | |||  || | || ||   ||    ||| | | | || |  |    |||||||  | || |||||||| || ||||||||||||||||| || || || |||||||| |||||  | ||||| ||||||
aatgattcgttgtgtgg----tcagtggtgtatttgttaggaatatatggtatcttaagttgtgaccttaaattctaatttgtagcttttctcgtgtatttcagGCGAGAGGGTTGAAGAAACACTTGAAGAGGCTCAATGCTCCAAAACACTGGATGCTTGACAAGCTTGGTGGGGCCTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv08s0058g00390.t01 (Vitis vinifera), 3'ss of exon 2
gaggttggtttcgtagcatatttttgaaatgtg-cgctgatttttttcttttttttatttttttacgttgtttttgtt---ttttttgttattt---ttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
       || |   |  ||  ||| ||| ||||    |  |  | | | ||||||  ||||   || || || ||| |    || |||| || |   |    | |||||| | || |||||||| |||||||||||||||||||| || |||||||||||||| |||||  | || || || |||
-------gtatgaaaatatgatttggaactgtgatttttgtaatctgccttttttgtttttccaacatttttattgctgaacttcttgtcatgtgggtgcattacagGCTAGAGGGTTGAAGAAACATTTGAAGAGGCTCAATGCCCCTAAGCATTGGATGCTTGACAAGCTTGGAGGTGCATTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: Vv06s0004g07150.t01 (Vitis vinifera), 3'ss of exon 1
gaggttggtttcgtagcatatttt----tgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
  |  ||  ||   || ||||||     |||  |      |  |||     ||||| || || | ||  |||| |     | |   | || |   |   | ||||| || || || ||||| |||||||||||||| ||||| || |||||||||||||| |||||| | || || || |||
--gaatgacttacaagaatatttgaatgtgaccttcatattagtttccccatttttcttgttctgttg-gttgctgaacctctacatttt-tggctcattacagGCACGAGGGTTAAAGAAACATTTGAAGAGGCTTAATGCCCCAAAGCATTGGATGCTTGACAAACTTGGGGGTGCATTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ14824 (Selaginella moellendorffii), 3'ss of exon 1
gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttg-ttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
                                                     | |         | | |    |  | ||  | || || | || | ||||  || ||   |||||||||| | |||  ||||||||| |||||||||||||||||   |||  | || || ||||||
----------------------------------------------------gtgagagcgcgcggctatcgcgggatcttacgattcttgtgttgtgcagGTGCGCGGGCCGAAGAAGCATCTCAAGGTGCTCAATGCCCCCAAGCATTGGATGCTGAGCAAGCTCGGCGGTGCCTTT

upper sequence: PP1S81_172V6.1 (Physcomitrella patens), 3'ss of exon 1
lower sequence: EFJ26570 (Selaginella moellendorffii), 3'ss of exon 1
gaggttggtttcgtagcatatttttgaaatgtgcgctgatttttttcttttttttatttttttacgttgtttttgttttttttg-ttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
                                                     | |         | | |    |  | ||  | || || | || | ||||  || ||   |||||||||| |||||  ||||||||| |||||||||||||||||   |||  | || || ||||| 
----------------------------------------------------gtgagagcgcgcggctatcgcgggatcttacgattcttgtgttgtgcagGTGCGCGGGCCGAAGAAGCATCTGAAGGTGCTCAATGCCCCCAAGCATTGGATGCTGAGCAAGCTCGGCGGTGCCTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttttttttatttttttacgttgtttttgttttttttgttatttttttcttcagGCTCGTGGTTTGAAGAAGCATTTGAAGAGGCTCAATGCGCCCAAGCATTGGATGCTCGACAAATTGGGTGGCGCCTTT
                   cgttgtttttgttttt  CT-rich tract
     tttttatttttttacg  TA-rich tract