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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatttattccttatacttttaaatacagaaaaaatgttttgtaaaaacaatggtatctcaacacagatttattttcagcccccaatatccttgagacttgatttttttttttttaatctttctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAAAACTATGTGTGCCCCTTCTATTGCTCTTATTCTGGTTATCAG

Basic information

species Vitis vinifera
transcript Vv07s0005g00740.t01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv07s0005g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G02130.1 (Glycine max), 3'ss of exon 3
gtaagatttattccttatacttttaaatacagaaaaaatgttttgtaaaaacaatggtatctcaacacagatttattttcagcccccaatatccttgagacttgatttttttttt-tttaatctttctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAAAACTATGTGTGCCCCTTCTATTGCTCTTATTCTGGTTATCAG
                                |  |||  ||| ||  ||    || ||  |        |||  |||| |    ||||  | ||    |||  || ||       | |  | |||||| ||  |||| || ||||||||||| | |||||| ||| | ||||||||||  ||||||   |||||||||||||||||||||||||| ||||||||||||
-----------------------------gtaagtaaacctttggttcaatttttgctaatt--------attatttttaatagaccaaactgctcccaactaaatcttaaaagagtattttgtttctgagtgtagGTCTTCCAGTTTGCTGATAAGTACAGGGGATCCTACAGCAATGCCTTGAAACCTTATGTGTGCCCCTTCTATTGCTCTTACTCTGGTTATCAG

upper sequence: Vv07s0005g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G01990.1 (Glycine max), 3'ss of exon 3
gtaagatttattccttatacttttaaatacagaaaaaatgttttgtaaaaacaatggtatctcaacacagatttattttcagcccccaatatccttgagacttgatttttttttttttaatctttctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAAAACTATGTGTGCCCCTTCTATTGCTCTTATTCTGGTTATCAG
                          |  |   |      |||| |   ||  |   |  ||     || |||  |    |     | | ||| |  ||| |  ||||| |||            ||| ||  |||| || ||||||||||| | |||||| ||| | ||||||||||  ||||||   ||||||||||||||||| |||||||| ||||| ||||||
------------------------gtaagccttatgttcattttttggtaattacttttacttggtgcaaattggtcccaa-----ctaaatcttaaagagtgtattttgttt------------ctgagtgtagGTTTTCCAGTTTGCTGATAAGTACAGGGGATCCTACAGCAATGCCTTGAAACCTTATGTGTGCCCCTTCTACTGCTCTTACTCTGGATATCAG

upper sequence: Vv07s0005g00740.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G37420.1 (Glycine max), 3'ss of exon 3
gtaagatttattccttatacttttaaatacagaaaaaatgttttgtaaaaacaatggtatctcaacacagatttattttcagcccccaat---atccttgagacttg-atttttttttttttaatctttctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAAAACTATGTGTGCCCCTTCTATTGCTCTTATTCTGGTTATCAG
                                            ||||  |   || | |   |  | |   || ||||  |  |  |||   || |||   |||     || | |  | |||  |||| |||||| |||| || |||||||| || |  || || ||| | ||||||||||| |||||   |  |||||||||||||||||| ||||| ||||||||||||
--------------------------------------------gtaagcatt-tgatttgagatgaaaacattgtttttggatctaaatggaattctttcaactaatgcttatatgatattatactttatgggtatagGTTTTCCAGTTTGCCGATAAATATAGGGGACCCTACAGCAATGGCTTGAAGCCCGTTGTGTGCCCCTTCTATTGTTCTTACTCTGGTTATCAG

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|349828703|gb|FQ418438.1|FQ418438
EST:     GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
EST: gi|351029054|gb|FQ435254.1|FQ435254
EST:     GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
EST: gi|161715260|gb|FC065809.1|FC065809
EST:     GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
EST: gi|110700767|gb|EE077711.1|EE077711
EST:     GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
EST: gi|110687298|gb|EE064584.1|EE064584
EST:     CTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: CTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
EST: gi|351043975|gb|FQ431406.1|FQ431406
EST:     GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
EST: gi|110701944|gb|EE080092.1|EE080092
EST:     GCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: GCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
EST: gi|71877408|gb|DT026463.1|DT026463
EST:     GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGG                         GTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA
genomic: GAAGAAGTGACCCTACATACTCCAAGCTTCTCATCAGGAGAGCTATTAGGgtaagattta ... ctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcccccaatatccttgagacttgatttttttttttttaatctttctgggtacagGTGTTTCAGTTTGCTGACAGGTACAGAGGAGCATACAGCAATGGATTGAAAAACTATGTGTGCCCCTTCTATTGCTCTTATTCTGGTTATCAG
                                  ttttaat  putative branch site (score: 3)
                    cttgattttttttttt  CT-rich tract
                 agacttgatttttttt  TA-rich tract