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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaaggtctgctattaaatatgaatggtgtactttgttacatatttcatttgaatattggaaatctacctttcctaaatgttattgctttacttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTGGTGACAAAGCCACCAACTGCGCTTCCAT

Basic information

species Vitis vinifera
transcript Vv17s0000g01390.t01
intron # 14
splice site 3'
intron type U2

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|71890592|gb|DT039647.1|DT039647
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
EST: gi|110693305|gb|EE069430.1|EE069430
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
EST: gi|110715877|gb|EE094430.1|EE094430
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
EST: gi|110386523|gb|EC951123.1|EC951123
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
EST: gi|351027836|gb|FQ448406.1|FQ448406
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
EST: gi|37187323|gb|CF606676.1|CF606676
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACAC
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACAC
EST: gi|110693717|gb|EE070192.1|EE070192
EST:     ATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
EST: gi|26261768|gb|CA812831.1|CA812831
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
EST: gi|110701577|gb|EE079309.1|EE079309
EST:     ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAG                         GGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG
genomic: ACATTAAAAAATGTCATTTGAAGATACTCAAGAGGAGGGAGAAAAAGAAGgtaccagtta ... acttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttgaatattggaaatctacctttcctaaatgttattgctttacttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTGGTGACAAAGCCACCAACTGCGCTTCCAT
                          tcctaaa  putative branch site (score: 2)
                                         ctttactt  putative PPT
                             taaatgttatt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaaggtctgctattaaatatgaatggtgtactttgttacatatttcatttgaatattggaaatctacctttcctaaatgttattgctttacttgaacagGGTTTGGATCAAGCCAGCAAAGCAACACCTTTGAAGGTTCAAAAAACTGTGGTGACAAAGCCACCAACTGCGCTTCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - ggtctgc
- - - - - - - - - - tgaatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -attggaaa