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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaaattgtatctcttctcttctgttaatctcaattacatcatatatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG

Basic information

species Vitis vinifera
transcript Vv10s0523g00030.t01
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 3'ss of exon 8
gtagaaattgtatctcttctcttctgttaatctcaattacatcata-tatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtt-tgttcactaag-attctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                                     ||  || |  | ||  | |  ||| || |   | |||| || | | |  | |  |  | || || |  || |   || | ||||  | |  | |||||||||||||| || || || ||||||||| |||||||||||||||||||||| || || ||||| || ||||| ||||| || |||||||| ||||||
------------------------------------gtatttcttgctctgttccacagttcattt---tgcacacttgtgttattttctga--acttggattcatgatatttatgtattcaatcttctttagAGTGTGATGGAGTATGAAGAACATGAAAAGAGAGCATGGAGTGTTGATTTTTCTCGAACAGAACCCTCGATGCTAGTATCTGGGAGTGATGATTGCAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 7
gtagaaattgtatctcttctcttctgttaatctcaattacatcatatatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                                     | ||   | ||| |   | | |   |||||| |  |  | || |||  ||  | |||    |  | || |  ||  |  |  |    | |||||||||||||||||| || |||||||| ||| |||||||||||||||||||||| ||||| ||  |||||||||| ||||| || |||||||| ||||||
----------------------------------gtatccactctctattcgacagt-tcattctgcaatggctgtattgtaat-tcaaactgag---gcatatggtttctgtgtattgtgccatgctagAGTGTGATGGAATATGAAGAGCATGAGAAGAGAGCATGGAGTGTTGATTTTTCTCGCACAGACTCTTCAATGCTAGTATCTGGGAGTGATGATTGCAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G126795_T01 (Zea mays), 3'ss of exon 9
gtagaaattgtatctcttctcttctgttaatctcaattacatcatatatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                        | |  | ||| |||  |   |  || |   ||||   || ||| |  |  ||  |  || ||   |   || | |  |||||  | |  ||         | |||||||||||||||||| || |||||||| ||  |||||||||||||||||||||| || || || ||||||||||| ||||| || ||||| || ||||||
-----------------------gtatcca-ctctattttacagttcattctgcaatggccat-tgc-tgtattataattcaaactg--aggcatgtggtttttgtgtattgtgaca-------tgctagAGTGTGATGGAATATGAAGAGCATGAGAAAAGAGCATGGAGTGTTGATTTTTCTCGAACAGAGCCTTCAATGCTAGTATCTGGGAGTGACGATTGCAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S25_325V6.1 (Physcomitrella patens), 3'ss of exon 8
------------------------------------------------------------gtagaaattgtatctcttctcttctgttaatctcaattacatcatatatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                                                              ||||   |   |   |  |||       | |||  | |||     ||    |||| ||||          |   | |      |  | |    || ||  |  |   ||     || | |  | | ||||||| ||||| || |||||||| || ||||| || ||||||||||| ||||| || || || ||||||||||| || || || ||||||||  |||||
gtaggcttgaaaatttggccacttaacataggttcgttgatgatgtccttaattgtggttccagaatgagcgacatatagctttacaatgtgtcatattcatt-cggatttttaaattttgacgcattgcttcggatgtacggtttgtctaaatatttgacatgttctgcttgccatcatatattaccagAGTGTCATGGAGTATGAGGAGCACGAGAAGCGTGCCTGGAGTGTTGACTTTTCCCGGACGGATCCTTCAATGCTGGTCTCTGGAAGTGATGATGGCAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S135_17V6.1 (Physcomitrella patens), 3'ss of exon 8
--------gtagaaattgtatctcttctcttctgttaatctcaattacatcatatatgcacaaatgttgatctgc-----attcacaattttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
         |     |  |  |  |    |   ||||    |  ||  || || | |      |||||| ||||       |||||   |   |||  | |     ||  | ||    || |||   | |  |||| ||  ||||  | |||||||| ||||||||||||||| | || |||||||| ||||||||||| ||||| ||  | ||||| || || || ||||||||  |||||
gtctgtccctcattttgatgacgttaagttgaagttaccaccccttgaattatttttttgtgtatgttggtctgtttgaagttcacttctagttaatgtgcggtgaatggccagggatttgacttcaaat--tttttttacagAGCATTATGGAATATGAGGAGCATGAAAAGAGGGCCTGGAGTGTGGATTTTTCACGAACTGATCCGACCATGCTAGTCTCGGGAAGTGATGATGGCAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S180_148V6.1 (Physcomitrella patens), 3'ss of exon 8
gtagaaattgtatctcttctcttctgttaatctcaattacatcatatatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                            ||  | |     | ||    |  | |||  ||  |  |     |   ||| ||    |       | ||    | | |||   |  | | | |||| |  |||||||||||||||| ||||| ||||||||||| || |||||  | |||||||| || || || || |||||||| || || || ||||| ||  | |||
------------------------atacaagatgagggggagcaatcctagagaaaaattagtacgtgagtaaggtttacttgtgtt------acttatgttatcttcctaagtaatttgtttcgtgcagAGTGTGATGGAATATGAGGAACATGAAAAGCGTGCTTGGAGCATCGATTTTTCTCGTACAGATCCATCAATGCTGGTTTCTGGAAGTGACGATGGAAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S86_153V6.2 (Physcomitrella patens), 3'ss of exon 8
-------------------------------------------------gtagaaattgtatctct----tctcttctgttaatctcaattacatcatatatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                                                 ||| ||   |    |       |||  | |   ||| || |  |     || ||   |  |||   ||||   |  |  | |  |   | |       ||   ||||   |    | ||| ||         ||||  | | ||| || || |||||||||||| | ||||||||||| ||||||||||| ||||| ||  | ||| | || || || || |||||  |||||
gtttgttttcattatgctcatgccgaagtcatagatatgtcttgatgatgtaaaatccgggctttaggtacctcacccgcccatcacactcccccttgatgtgtgtaggtgt--gtctgacgtgtctttctggttcacacaggcaagttctcagttgacttgtaatgatgctgc-------agAGCATAACGGAGTATGAAGAGCATGAAAAGAGGGCATGGAGTGTGGATTTTTCACGAACTGATCCCACTATGTTAGTCTCGGGAAGCGATGATGGCAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S11_401V6.1 (Physcomitrella patens), 3'ss of exon 8
------------------------------gtagaaattgtatctcttctcttctgttaatctcaatt---acatcatatatgcacaaatgttgatctgcattcacaattttctaacctcccaatgatttcgagtttgttcactaa--gattct---ttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                              ||  ||     || |||||||      ||||   | ||   |  |  | ||||   |  |   | | || |||||   || ||  |   ||   | |     || |||   |  |   ||       |  | ||  ||||  | |||||||| |||||||||||||| ||||| ||||| || ||||| ||||| ||||| ||| ||||||| || || |||||||||||| |||||
gcaagtcgtcattctctttctttatgtctggttcaagagacatgtcttctcgatgtgtaattggagttcttatgttgtttatgggtatgtacagttatg-attcatcgttctcctaatccctttttagggatagcttgacaatcagctgacctcaagtagtgttgcagAGCATCATGGAATATGAGGAGCATGAAAAACGAGCTTGGAGCGTAGATTTCTCACGGACTGATCCTACAATGCTAGTGTCAGGCAGTGATGACGGCAAG

upper sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S37_28V6.1 (Physcomitrella patens), 3'ss of exon 8
------------------------------------------------------------gtagaaattgtatctcttctcttctgttaatc-tcaattacat-catatatgcacaaatgttgatctgcattcacaattttctaacctc--ccaatg-atttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
                                                                 || | ||  | |     | ||  |  | ||||| |  | ||| || | | | |  |  ||      |  ||| | | ||  | |  | ||   || | ||  |  |   ||   |   |     | | |||| ||  | || ||||||||||| || ||||| || |||||||||||||||||  | |  || || |||||| | || || || ||||| ||| |||||
gtaaatcggagtggattattggcacagcacaggactgttgatgttccaacttgggttcgtaccagaaatatacatgtatgtctttgcaatgcgtcaatcattttcatttacgtatataactatatacattatttcaagtgtatagtccctgcaaacatatgttgacatgttctgctcgcaaattaccattgccagAGCGTTGTCGAGTACGAGGAGCACGAGAAGCGCGCCTGGAGTGTTGATTTTTCCTGTATAGATCCATCAATGATGGTCTCTGGAAGTGACGACGGCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctaacctcccaatgatttcgagtttgttcactaagattctttttcttctagAGTGTGATGGAATACGAGGAGCATGAAAAGCGAGCATGGAGTGTTGATTTTTCACGCACTGAACCTTCAATGCTCGTATCCGGCAGTGATGACTGCAAG
  ttctaac  putative branch site (score: 1)
                                        ttctttttcttct  putative PPT
                                       attcttttt  TA-rich tract