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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCAGTTTAGCTCCACCATCAGCTGATCCCCATGGCTATTGGAATGAATGCAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcatttatgacaaatttttttttttttttttttttttttatcagaaacaaaatatatatatatatattaataataattaaggtacaagagaagg...

Basic information

species Vitis vinifera
transcript Vv14s0060g00230.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0060g00230.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA19G41240.1 (Glycine max), 5'ss of exon 10
GCCAGTTTAGCTCCACCATCAGCTGATCCCCATGGCTATTGGAATGAATGCAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcatttatgacaaatttttttttttttttttttttttttatcagaaacaaaatatatatatatatattaataataattaaggtacaagagaagg
 ||||||||||||| |||||||| |||||||||||||||||| |  |||| | |   ||||||||  | ||| ||  | ||||||||||||| ||||||||| || | || ||||| | ||    ||  |      |    |    ||   || |||  ||  |    |  ||| | |    | |   |    || |  |
TCCAGTTTAGCTCCTCCATCAGCAGATCCCCATGGCTATTGGCAACAATGTAGATTAAACCATGCTAAATGTACTGGACCACAAATTCAATTTCTGCAAGgtaatatgatgtatgagatataacattgatgacaagtggaatgaagtcttcaataaatcattca---gtcgattgagacgtttcactctctttgatacag

upper sequence: Vv14s0060g00230.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA03G38650.1 (Glycine max), 5'ss of exon 10
GCCAGTTTAGCTCCACCATCAGCTGATCCCCATGGCTATTGGAATGAATGCAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcatttatgacaaatttttttttttttttttttttttttatcagaaacaaaatatatatatatatattaataataattaaggtacaagagaagg
 |||| |||||||| ||||| || |||||||||||||||||| ||||||| | |   ||||||||  | ||| ||  | ||||||| ||||| ||||||||| ||   || ||||| ||||    ||  |      |    |    |||  || |||  ||  |  |   |   |    | | |        | | |   
TCCAGCTTAGCTCCTCCATCTGCAGATCCCCATGGCTATTGGCATGAATGTAGATTAAACCATGCTAAATGTACTGGACCACAAATCCAATTTCTGCAAGgtaataatatgtatgagaaataacattgatgacaagtggaatgaagtcatcaataaatcattcagttgattgagacgtttcactgtctcttgatacag--
















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|110415561|gb|EC981480.1|EC981480
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAG                         GATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcat ... tttggaacagGATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
EST: gi|110363756|gb|EC927367.1|EC927367
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAG                         GATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcat ... tttggaacagGATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
EST: gi|32246991|gb|CD712810.1|CD712810
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGG                         T
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAA-Ggtgatttcat ... tttggaacag-
EST: gi|32246991|gb|CD712810.1|CD712810
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGG                         T
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAA-Ggtgatttcat ... tttggaacag-
EST: gi|32246638|gb|CD712457.1|CD712457
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGG                         T
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAA-Ggtgatttcat ... tttggaacag-
EST: gi|32246638|gb|CD712457.1|CD712457
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGG                         T
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAA-Ggtgatttcat ... tttggaacag-
EST: gi|110363559|gb|EC927156.1|EC927156
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAG                         GATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcat ... tttggaacagGATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
EST: gi|110373299|gb|EC937521.1|EC937521
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAG                         GATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcat ... tttggaacagGATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
EST: gi|110397107|gb|EC962828.1|EC962828
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAG                         GATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcat ... tttggaacagGATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
EST: gi|110422538|gb|EC988864.1|EC988864
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAG                         GATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcat ... tttggaacagGATTCAGGAATCAAATGCTGAATGCAATAAAAGGCTTCTCAATGTCTAAAC
EST: gi|110696063|gb|EE074792.1|EE074792
EST:     CAAAAAGAACCATGCCCAGTGTTCTCCATCACAA-TTCAATTCCTGCAAG                         GATTCANGGA-TCAAATGCTGAAATGCA-TAAAAG
genomic: CAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcat ... tttggaacagGATTCA-GGAATCAAATGCTGAA-TGCAATAAAAG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCAGTTTAGCTCCACCATCAGCTGATCCCCATGGCTATTGGAATGAATGCAAAAAGAACCATGCCCAGTGTTCTCCATCACAAATTCAATTCCTGCAAGgtgatttcatttatgacaaatttttttttttttttttttttttttatcagaaacaaaatatatatatatatattaataataattaaggtacaagagaagg

- - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - atgacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagagaa