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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTATGTCTGCTTACTGTGATCGTCAGTCAGTGGAGTTAAACTCCATTGCATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttttggttttctgaattatttgttggcaatccatgttgcttcccacctgtggcttcctgttgtatgtatacatgcacatttctataggtggaa...

Basic information

species Vitis vinifera
transcript Vv00s0186g00080.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0186g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT5G55160.2 (Arabidopsis thaliana), 5'ss of exon 3
GCTTATGTCTGCTTACTGTGATCGTCAGTCAGTGGAGTTAAACTCCATTGCATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttttggttttctgaattatttgttggcaatccatgttgcttcccacctgtggcttcctgttgtatgtatacatgcacatttctataggtggaa
 || |||  |||||||||||| |||||||| ||||| || ||||| ||||| ||||| ||||||||||| || || ||||  ||||||||||||||||||||||      |   | | |     |||   |   | |   |   | ||  ||    ||  |   |    ||       ||   || || || ||      
ACTGATGAATGCTTACTGTGACCGTCAGTCTGTGGATTTCAACTCAATTGCTTTCTTGTTTGATGGTCGTCGTCTTCGTGCCGAGCAGACTCCAGATGAGgtaacatcact--ctctgtaccccattctcttttactgttttccgtttttcaaagttgtatgatttccttaaccgagaatcttcaattttacag------

upper sequence: Vv00s0186g00080.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT4G26840.1 (Arabidopsis thaliana), 5'ss of exon 2
GCTTATGTCTGCTTACTGTGATCGTCAGTCAGTGGAGTTAAACTCCATTGCATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttttggttttctgaattatttgttggcaatccatgttgcttcccacctgtggcttcctgttgtatgtatacatgcacatttctataggtggaa
||| |||  |||||||||||| || || || |||||  | ||||||||||| ||||| |||||||| || || || ||||  ||||| ||||| |||||||||   | ||     ||||  ||  ||| ||       | |     ||      | | | |||   |  ||   || | || ||| | |           
GCTGATGAATGCTTACTGTGACCGGCAATCTGTGGACATGAACTCCATTGCTTTCTTGTTTGATGGGCGTCGTCTTCGTGCTGAGCAAACTCCCGATGAGgtataacattca---ttctacatgctttatt------tcttaccttttgaagtttatagtttctgatactaataattcttg-acactacag---------
















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|22009992|gb|BQ795026.1|BQ795026
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|110700427|gb|EE078455.1|EE078455
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|34545460|gb|CF513692.1|CF513692
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|110715752|gb|EE094161.1|EE094161
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|110362741|gb|EC926292.1|EC926292
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|77583211|gb|DV220644.1|DV220644
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|46917740|gb|CN547069.1|CN547069
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|160482170|gb|EY254983.1|EY254983
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|34545546|gb|CF513778.1|CF513778
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCCCCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|27585742|gb|CB008437.1|CB008437
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
EST: gi|254917816|gb|GR903468.1|GR903468
EST:     CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAG                         CTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA
genomic: CATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttt ... atgggtttagCTTGAAATGGAGGATGGTGATGAAATAGATGCAATGCTGCACCAAACTGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTATGTCTGCTTACTGTGATCGTCAGTCAGTGGAGTTAAACTCCATTGCATTCTTATTTGATGGTCGCCGACTCCGTGGAGAGCAGACTCCAGATGAGgtaaggcttttggttttctgaattatttgttggcaatccatgttgcttcccacctgtggcttcctgttgtatgtatacatgcacatttctataggtggaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG