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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatcttgatagaaatttcttgttctcatgtcttagcagtcttgttctgtgtttctgcatgcatgttttttattctctttgctgatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC

Basic information

species Vitis vinifera
transcript Vv14s0060g01510.t01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 9
--gtatgatcttgatagaaatttcttgttctcatgtcttagcagtcttgttctgtgt---ttctgcatg-catgttt--------ttta----ttctctttgctgatg-acagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC
   ||  | |||||      |    ||   |   |  |  |||||  ||| |  ||    || || ||| ||  |||        ||||    |  | |||  |  || | |||||| | ||   | | |  | ||||||||| |||||||| ||||| ||||||||||||||  | ||||| ||||||||| | || || || ||||| || 
gtatactaccttgacttgc-tgcactgccttttggcttgtgcagttgtgtgcaatgcaacttatgtatgtcacctttgaacggaatttagaactcatgttttgtcttgcatagGTACTTGGTGTCTGAGGGCTGCATCAAGCCATTGTGTGACCTTCTTGTCTGCCCTGATCCGAGAATTGTAACAGTTTGTCTGGAGGGTCTGGAGAATATT

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA19G41770.1 (Glycine max), 3'ss of exon 9
--------gtatgatcttgatagaaatttcttgttctcatgtcttagcagtcttgttctgtgtttctgcatgcatgttttttattctctttgctgat-gacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC
          ||  |  || |   ||| | |  ||   || |  | |  ||  |  | ||||||  |  | | | |||||  ||  | ||   || | ||||||| ||| || |||||||  |  || ||||||||||||||||||||  | || ||||||||  ||||||| ||||||||||| ||||||||||| ||||||
gtatggagagatccttgtgcttagaatgtttccttgagattttattggggttatagtttgtgttctttgaag-aggttttgaatctttttccttggttgacagGTTCCTGGTAAGTCAAGGGTGTATTAAGCCCTTGTGTGATCTTCTCATATGTCCTGATCCTAGGATTGTGACAGTTTGTTTGGAAGGGCTTGAAAACATC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G39210.1 (Glycine max), 3'ss of exon 10
--------gtatgatcttgatagaaatttcttgttctcatgtcttagcagtcttgttctgtgtttctgcatgcatgttttttattctctttgctgat-gacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC
          ||  |  || |   ||| | |  ||   || |  | |  ||  |  | | | |||||      | |||||   |  | ||   || | ||||||| ||| || |||||||  |  || | ||||||||||||||||||  | || ||||||||  ||||||| ||||||||||| ||||||||||| ||||||
gtatggagagattcttgtgcttagaatgtttccttgagattttattggggttatagttttt-tttctttgaagaggttttgagtctttttccttggttgacagGTTCCTGGTAAGTCAAGGGTGTATTAGGCCCTTGTGTGATCTTCTCATATGTCCTGATCCTAGGATTGTGACAGTTTGTTTGGAAGGGCTTGAAAACATC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G29000.1 (Glycine max), 3'ss of exon 9
gtatgatcttgatagaaatttcttgttctcatgtcttagcagtct----tgttctg-----tgtttctgcatgcatgttttttattctctttgct--gatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC
|||||     |  |   | || || ||   ||  |  || ||  |    || |||      | ||| | | |||| | | |  ||| | | | |   |    ||||| |||||| |||||||  |  ||||| |||||||||||||||||  |||| ||||||||  ||||||| ||||||||| | ||||| ||||| ||||||
gtatggg---gggaagcacttgttttttatattcccaagtaggttaatatgatctcataattttttttccttgcaagatataaattatttctccctggtctgcagGTTCCTAGTAAGTCAAGGGTGTATCAAACCCTTGTGTGATCTTCTCATCTGTCCTGATCCTAGGATTGTGACAGTTTGTCTGGAAGGCCTTGAAAACATC

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G38320.3 (Glycine max), 3'ss of exon 9
gtatgatcttg-atagaaatttcttgttctcatgtc--ttagcagtcttgttctgtgtttctgcatgcatgttttttattctctttgct--gatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC--------------------------------------------------------------------------
|||||     | |      |||  | ||||||      |||  |   |       | ||| | | |||| | | |  ||| | |   |   | |  ||||| |||||| || ||||  |  || ||||||||||||||||||||  |||| ||||||||  | ||||| ||||||||| | ||||| ||||| ||||||                                                                          
gtatggggaagcacttgtttttaatattctcaaagaggttaatatgatctcataatttttttccttgcaagatatgaattatttccccctggtttgcaggttcctagtaagccaagggtgtattaagcccttgtgtgatcttctcatctgtcctgatcctagaattgttacagTTTGTCTGGAAGGCCTTGAAAACATCTTGAAGGTGGGAGAAGCTGATAAAAACATAGGAAATACTGGTGATGTGAATCTATATGCCCAAATGATTGATGA

upper sequence: Vv14s0060g01510.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G38320.1 (Glycine max), 3'ss of exon 9
gtatgatcttg-atagaaatttcttgttctcatgtc--ttagcagtcttgttctgtgtttctgcatgcatgttttttattctctttgct--gatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC
|||||     | |      |||  | ||||||      |||  |   |       | ||| | | |||| | | |  ||| | |   |   | |  ||||| |||||| || ||||  |  || ||||||||||||||||||||  |||| ||||||||  | ||||| ||||||||| | ||||| ||||| ||||||
gtatggggaagcacttgtttttaatattctcaaagaggttaatatgatctcataatttttttccttgcaagatatgaattatttccccctggtttgcagGTTCCTAGTAAGCCAAGGGTGTATTAAGCCCTTGTGTGATCTTCTCATCTGTCCTGATCCTAGAATTGTTACAGTTTGTCTGGAAGGCCTTGAAAACATC

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|34543930|gb|CF512162.1|CF512162
EST:     ATTGGGCAATCTCAAATGCTACGATCTGGTGGTTCACATGAACAAATCAA                         GTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTG
genomic: CTTGGGCAATCTCAAATGCTAC-ATCTGGTGGTTCACATGAACAAATCAAgtatgatctt ... ctgatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTG
EST: gi|110703588|gb|EE080564.1|EE080564
EST:     GCTTGGGCAATCTCAAATGCTACATCTGGTGGTTCACATGAACAAATCAA                         GTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTG
genomic: GCTTGGGCAATCTCAAATGCTACATCTGGTGGTTCACATGAACAAATCAAgtatgatctt ... ctgatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTG
EST: gi|110359173|gb|EC920237.1|EC920237
EST:     GCTTGGGCAATCTCAAATGCTACATCTGGTGGGTCACATGAACAAATCAA                         GTACCTAGTTAGTCAAGCA
genomic: GCTTGGGCAATCTCAAATGCTACATCTGGTGGTTCACATGAACAAATCAAgtatgatctt ... ctgatgacagGTACCTAGTTAGTCAAGCA
EST: gi|30132703|gb|CB918042.1|CB918042
EST:     GCTTGGGCAATCTCAAATGCTACATCTGGTGGTTCACATGAACAAATCAA                         GTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTG
genomic: GCTTGGGCAATCTCAAATGCTACATCTGGTGGTTCACATGAACAAATCAAgtatgatctt ... ctgatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cagtcttgttctgtgtttctgcatgcatgttttttattctctttgctgatgacagGTACCTAGTTAGTCAAGCATCCATCAAGCCCTTGTGTGATCTTCTGGTCTGCCCTGATCCACGGATTGTCACAGTTTGTTTAGAAGGGCTTGAGAACATC
                                           tgctgat  putative branch site (score: 3)
                             ttttttattctctttg  CT-rich tract
                             ttttttattctcttt  TA-rich tract