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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGCCACCGTCGCAGATCTACGCGCTGCTCGTGTTCGTGATCCTGCTTGTATCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatcttcatcatttgatctgatgaatccacaatttctatatcttgcgatttgatttatgaatattgttttaggttaggttaggttgattcttcagttatgcgaatttcggatcatgatttggctttgttgaatttgaattag

Basic information

species Arabidopsis thaliana
transcript AT5G56760.1
intron # 1
splice site 5'
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|124937587|gb|EL014327.1|EL014327
EST:     TTACAAAGGCTTCTTAGCTATTCAG                         GCGCATTCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGC
genomic: TTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCA-TCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGC
EST: gi|124863110|gb|EH947547.1|EH947547
EST:     TCTCCTC-ATTACAAAGGCTTCTTAGCTATTCAG                         GCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTA
genomic: TCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTA
EST: gi|116467264|gb|EG509856.1|EG509856
EST:     TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAG                         GC--ATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
genomic: TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
EST: gi|116466715|gb|EG509307.1|EG509307
EST:     TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAG                         GC--ATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
genomic: TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
EST: gi|124814402|gb|EH899268.1|EH899268
EST:     TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAG                         GCGCATCGTGTATCACACAAGCTATGGACACAATCACG
genomic: TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTATGGACACAATCACG
EST: gi|19875064|gb|AU235895.1|AU235895
EST:     TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAG                         GCGCATCGNGTATCACACAAGCTATGGACACAATCACGGGAGCCATTANCA
genomic: TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
EST: gi|116467276|gb|EG509868.1|EG509868
EST:     TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAG                         GCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
genomic: TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
EST: gi|164098004|gb|EL982135.1|EL982135
EST:     TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAG                         GCGCATCGTGTATCACNCAAGCTA
genomic: TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTA
EST: gi|116466512|gb|EG509104.1|EG509104
EST:     TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAG                         GCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA
genomic: TCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatctt ... tttgaattagGCGCATCGTGTATCACACAAGCTATGGACACAATCACGGAAGCCATTAGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGCCACCGTCGCAGATCTACGCGCTGCTCGTGTTCGTGATCCTGCTTGTATCTCGTTCTCTCATTGTCTCCTCAATTACAAAGGCTTCTTAGCTATTCAGgtgaaatcttcatcatttgatctgatgaatccacaatttctatatcttgcgatttgatttatgaatattgttttaggttaggttaggttgattcttcagttatgcgaatttcggatcatgatttggctttgttgaatttgaattag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC