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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagattaatttccatttgcttttagatgaagggttgatactaattcttttttatccatctcaaagccataattacagccagcttcttttgcttactataatactgtgaattgataaccatcatctcaagtgcttatgtgatgatatcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTTTAGATGCATCAGCAGCACACATTGCAAACTTGTTGTCAACTGAACCTGC

Basic information

species Vitis vinifera
transcript Vv09s0002g06010.t01
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G01350.1 (Glycine max), 3'ss of exon 5
gtaagattaatttccatttgcttttagatgaagggttgatactaattcttttttatccatctcaaagccataattacagccagcttcttttgcttacta-taatactgtgaattgataaccatcatctcaagtgcttatgtgatgata-tcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTTTAGATGCATCAGCAGCACACATTGCAAACTTGTTGTCAACTGAACCTGC
                                      ||   ||  | || ||  |    || |     |||||| | |     | | |  | ||  | |  |||  | |    | ||  | |  || |  ||||||   | |  ||  ||||||||||||||||||| |||||||| ||||||||||| |||| ||| ||||||||||| ||||||||||||||||| ||||||||||| || || || ||
------------------------------------gtatgtcaaaacattctttgcaccttctattttttaattaaatcatcactatgtaacctaaaacttttaccatcacaaaaaaagaagc--ctgacttgcttaatgggtattaaccagGGTTTGATGTGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAGGGTTTAGATGCCTCAGCAGCACACATTGCTAACTTGTTGTCCACAGAGCCAGC

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G43990.2 (Glycine max), 3'ss of exon 5
gtaagattaatttccatttgcttttagatgaagggttgatactaattcttttttatccatctcaaagccataattacagccagcttcttttgcttactataatactgtgaattgataaccatcatctcaagtgcttatgtgatgatatcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTTTAGATGCATCAGCAGCACACATTGCAAACTTGTTGTCAACTGAACCTGC
                   |    |  |   |   ||   ||  | ||||||| |   |  |||   |  |  | ||    | |||       ||||  | |||     ||    |||| | | | |   ||  |  |        ||||||||||||||||||||| |||||||| ||||||||||| |||| ||| ||||||||| | || |||||||||||||| |||||||||||||| || || ||
-------------------gtacgtcaaaacattctttgcacctactctttttaaattaaatcatcactgtg-taacctaaaactt-------ttacagtcataaaaaaaaagtctaactagcttattgggtattatt-------catcagGGTTTGATGTGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAGGGTTTAGATACCTCGGCAGCACACATTGCTAACTTGTTGTCAACAGAGCCAGC

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G22420.1 (Glycine max), 3'ss of exon 4
gtaagattaatttccatttgcttttagatgaagggttgatactaattcttttttatccatctcaaagccataattacagccagcttcttttgcttactataatactgtgaattgataaccatcatctcaa--gtgcttatgtgatgata-tcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTTTAGATGCATCAGCAGCACACATTGCAAACTTGTTGTCAACTGAACCTGC
                             | |   || | |  ||  |  | || | | |||        | |||  |  ||||           ||| |  |||||| |  |   |||   ||  | ||   | ||||| | |   || |||||||||||| ||||||| |||||||| ||||||||||| |||| ||| ||||||||||| |||||| |||| ||||| |||||||||||||| || || ||
-----------------------------gtaatattaa-ataaaccccctcttgtgcttctactcattctgattg-aatcagc-----------actgtgttactgtaagctag-aacttgcagttaaaccttacttatctaaaattaatcagGGTTTGATATGGGAGAACTTTCAGAAGATGGTCCAGATGATTGGGAGGGTTTAGATGCCTCAGCATCACATATTGCCAACTTGTTGTCAACAGAGCCAGC

upper sequence: Vv09s0002g06010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G03670.2 (Glycine max), 3'ss of exon 4
gtaagattaatttccatttgcttttagatgaagggttgatactaattcttttttatccatctcaaagccataattacagccagcttcttttgcttactataatactgtgaattgataaccatcatctcaag--tgcttatgtgatgata-tcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTTTAGATGCATCAGCAGCACACATTGCAAACTTGTTGTCAACTGAACCTGC
                             | |  ||| | |  || || ||    | | ||| |        |||  |  ||||           ||| |  || ||| |  |   |||   ||  | ||   | ||||| | |   || |||||||||||| |||||||||||||||| ||||||||||  |||| |||  |||||||||| |||||| |||| ||||| |||||||||||||| || || ||
-----------------------------gtaatgttaa-agaaactcctt---gtgcttctaatcattcggattg-aatcagc-----------actgtgttattgtaagctag-aacttgcagttaaaccttacttatctaacattaatcagGGTTTGATATGGGAGAGCTTTCAGAAGATGGTCCAGTTGATTGGGAGAGTTTAGATGCCTCAGCATCACATATTGCCAACTTGTTGTCAACAGAGCCAGC

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|110707158|gb|EE083312.1|EE083312
EST:     TGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT                         GGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTT
genomic: TGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCATgtaagattaa ... atgatatcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTT
EST: gi|110380838|gb|EC946134.1|EC946134
EST:     TGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCAT                         GGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTT
genomic: TGCTCCTACTCGTCCTGTTGCAGTACTCGGTGGATTTCCTTGCACTGCATgtaagattaa ... atgatatcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctataatactgtgaattgataaccatcatctcaagtgcttatgtgatgatatcagGGTTTGATGTGGGAGAGCTTTCAGATGATGGTCCAGACGATTTGGATGGTTTAGATGCATCAGCAGCACACATTGCAAACTTGTTGTCAACTGAACCTGC
                tgataac  putative branch site (score: 2)
             aattgataa  TA-rich tract