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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG

Basic information

species Vitis vinifera
transcript Vv09s0002g00150.t01
intron # 14
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os03g27990.1 (Oryza sativa), 3'ss of exon 14
------------------gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
                   ||  ||  || ||||   | | |  |    |||||  |    |   ||||  || |||    ||| || |  || |  |     |   || | || | | ||  | ||    ||| |||    |  |  |  |||| ||  | || ||||||||| |||| ||||||||||||||||||||  | | | | ||||| ||||| |||||  |||| 
gtgaaaagtcagctgtccataccaacatttcacttgaatctacactcaaattcctctgaaatgactgaattgagaagacaatgagtccttacagtaacaga--aaacaattgttgtctgaaactatt---gcagATCCCAACCATGGCCACAGCAGTCGCTAGTCCGATGGGCTTCTCCGCAGCTTCATGACATCGATGCGTTAGATCAGATGGTAGATCCAGCACTGGAAGGA

upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 14
----gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
     | ||    || |  ||       ||  | | ||        | || || |||       |       || |  ||  | |  |   || | |   |    ||||||   ||||||||| ||| | ||||||||||| ||||||||||||||||| || ||||| || ||||| || |||||  ||||||||||||||||||| ||| | ||||||
gtgaattaatggttttctttatgtctgctctcacgtttttgagcaatattctgcagattttgaaattatgcacaaataataatgttgtctcctgattgcaa----aacattccatgacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG

upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 16
gtaaa--aatg-ttgcactactagcca--tccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
|| ||  |||| ||    |  | | |   ||  | | ||        | || || ||| |     |        |||  ||  | |  |   || | |   |    |||||| | | ||||||| ||| | ||||||||||| ||||||||||||||||| || ||||| || ||||| || |||||  ||||||||||||||||||| ||| | ||||||
gtgaattaatggttttttttttggtctgctctcacgtttttgagcaatattctgcagaaattgaaattatgtagatataataatgttgtctcctgattgcga----aacattctgtaacagCTCAAGGCCAAGATCTGAGCAGTCTTTGGTTCGATGGGCAACACCTCAACTCCATGATATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGG

upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA16G01790.1 (Glycine max), 3'ss of exon 14
gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattt-tctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
|||| | || |  ||   ||   | |  || |     |||| |||    |   | | |     | || |||   | |    || |   | | | |||    ||| ||  |   ||||||| ||| | || ||||||||  | |||||||||||||| || ||||| || ||||| ||||||||| ||||||||||||||||||| ||| |  |||| 
gtaagattgatatacctttaagtagc--ataacagttttactttt----acatgtacacactttcaaacat--taatgggcacatgcatgattgttaa---aacgttccttctacagCTCAAGGCCGAGGTCTGAGCAGGCGTTGGTTCGATGGGCAACACCTCAACTCCATGATATCGATGCTTTGGCTAAAATGGTTGATCCTGCATTGGAAGGA

upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA07G05230.1 (Glycine max), 3'ss of exon 14
--gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
  | || | || |  ||   ||   | |  || |     |||| |||    |   | | |     | || ||||  | |    || |  || | | |||         ||  |  |||||| ||| | || ||||||||  |||||||||||||||| || ||||| || || || |||||||| ||||||||||||||||||||  || |  |||| 
gtgaaagattgatatacctttaagtaac--ataacagttttactttt----acatgtacacactttcaaacata--aatgggcacatgcctgattgttaaaacgttccttctt--cagCTCAAGGCCGAGGTCTGAGCAGGCTTTGGTTCGATGGGCAACACCTCAACTCCACGATATCGATGCCCTGGCTAAAATGGTTGATCCTACATTGGAAGGA

upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT3G14350.3 (Arabidopsis thaliana), 3'ss of exon 15
gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactatta-tgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
           | |||  || | |||||     ||| |  ||||  |  || |    | ||        |     ||    | | |  ||| |  |  || |     | | ||||||| | ||||| ||||| || ||||| |||||  ||||||| || ||||||||||| ||||| |||||| |||  |||||||||||||| || |||||||||
-----------gtactttta-caatccata---tccctcgccttcctaaaaaaacttaagagtgatgcaaatgtgttcagaattgaagtaagtcctggtgattgttgtgtgtgacagCACAAGGTCAAGATCGGAACAATCATTGGTAAGATGGGCAACACCTCAGCTTCACGACATTGATGCTTTGGGCAAAATGGTTGATCCAGCTCTCAAAGGG

upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT1G53730.1 (Arabidopsis thaliana), 3'ss of exon 14
gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
                   | |  |   ||||| | |  ||     |||| |     ||    |||   ||    || | |    | || || | |  ||||  ||||     |||| | ||||| ||||||||||| ||  ||||||||||||| || || || ||||| ||||| |||||| | || |||||||||||||| || || ||||||
----------------gtaaactctattatgatccaa--actaggcttgatgtatgtag---ttgagaaatgtgtttctgtttgaatcttacaactg-gttataatttg--agcagCACAAGGTCAAGATCTGAGCAGTCACTGGTTCGATGGGCGACACCACAACTTCACGACATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGG

upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT1G53730.2 (Arabidopsis thaliana), 3'ss of exon 14
gtaaaaatgttgcactactagccatccaatgattccattaccttttttgaagagaaaaggacctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
                   | |  |   ||||| | |  ||     |||| |     ||    |||   ||    || | |    | || || | |  ||||  ||||     |||| | ||||| ||||||||||| ||  ||||||||||||| || || || ||||| ||||| |||||| | || |||||||||||||| || || |||   
----------------gtaaactctattatgatccaa--actaggcttgatgtatgtag---ttgagaaatgtgtttctgtttgaatcttacaactg-gttataatttg--agCAGCACAAGGTCAAGATCTGAGCAGTCACTGGTTCGATGGGCGACACCACAACTTCACGACATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAA---

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110375773|gb|EC940790.1|EC940790
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|110701239|gb|EE078596.1|EE078596
EST:     TTTGGTGTAGTCATGCTGGAACTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCANCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|349830454|gb|FQ416752.1|FQ416752
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|110391079|gb|EC956033.1|EC956033
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|110363514|gb|EC927108.1|EC927108
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGG
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGG
EST: gi|110360391|gb|EC923453.1|EC923453
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTG--A-                         -T--AGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|110379506|gb|EC944705.1|EC944705
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|30321691|gb|CD004953.1|CD004953
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|34319519|gb|CF372273.1|CF372273
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAACCCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCT
EST: gi|27579137|gb|CB001832.1|CB001832
EST:     TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAG                         CTCCAGGTCCAGATCTGAGCAATCTTTG
genomic: TTTGGTGTAGTCATGCTGGAGCTTCTTTCTGGACGTAAACCATTTGATAGgtaaaaatgt ... tttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cctgaatcataccattttctacttagctaactattatgttaacattttctgacagCTCCAGGTCCAGATCTGAGCAATCTTTGGTTCGATGGGCTACTCCTCAGCTTCATGACATCGATGCTCTGGCTAAAATGGTTGATCCGGCACTCAAAGGG
                                    tgttaac  putative branch site (score: 2)
                                          cattttct  CT-rich tract
                           taactattatgttaac  TA-rich tract