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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtaagtagttggtagttgttatctgatgcaaggtcttgggatgaatagttcctcttaaggagaaactgcatatatgtttacttcatattttactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTAGTGGAAGTGGCAAAACTACTCTTTTCTACCAA

Basic information

species Vitis vinifera
transcript Vv01s0127g00270.t01
intron # 2
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|110379904|gb|EC945128.1|EC945128
EST:     ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAA                         TTCGCCTGTTCAAGCGCACAAAATCCAATACCATTGTACTTACTGGGCTTA
genomic: ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAAgtaattccgc ... tactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
EST: gi|110713701|gb|EE089850.1|EE089850
EST:     ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAA                         TTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
genomic: ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAAgtaattccgc ... tactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
EST: gi|34542592|gb|CF510824.1|CF510824
EST:     ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAA                         TTCGCCTGTTCAAGCGCACAAAATCCAATACCATTGTACTTACTGGGCTTA
genomic: ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAAgtaattccgc ... tactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
EST: gi|71856852|gb|DT005907.1|DT005907
EST:     ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAA                         TTCGCCTGTTCAAGCGCACAAAATCCAATACCATTGTACTTACTGGGCTTA
genomic: ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAAgtaattccgc ... tactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
EST: gi|352778082|gb|FQ467135.1|FQ467135
EST:     ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAA                         TTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
genomic: ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAAgtaattccgc ... tactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
EST: gi|27583546|gb|CB006241.1|CB006241
EST:     ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAA                         TTCGCCTGTTCAAGCGCACAAAATCCAATACCATTGTACTTACTGGGCTTA
genomic: ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAAgtaattccgc ... tactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA
EST: gi|156729691|gb|EV233812.1|EV233812
EST:     ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAA                         TTCGCCTGTTCAAGCGCACAAAATCCAATACCATCGTACTTACTGGGCTTA
genomic: ATATGCGGCTATTGCTGTTGTGTTCGTCACAACCTTTTTTCTGTTATCAAgtaattccgc ... tactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagttcctcttaaggagaaactgcatatatgtttacttcatattttactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTAGTGGAAGTGGCAAAACTACTCTTTTCTACCAA
                                          ttttacttt  CT-rich tract
                        atatatgtttacttca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtagttggtagttgttatctgatgcaaggtcttgggatgaatagttcctcttaaggagaaactgcatatatgtttacttcatattttactttgcagTTCGCCTGTTCAAGCGCACAAAATCCAATACCGTTGTACTTACTGGGCTTAGTGGAAGTGGCAAAACTACTCTTTTCTACCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - -tagttgg
- - - - - - - - - - - - gatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgcata