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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaaacacaggatacacaggaaactatacgcttcactgttaattggttgattgatgtgatttattggttctgttattgcagGTGCTTCAAGGATTAATCTATCTTCATCACGATAGGCATATCATCCATCGTGACTTGAAACCATCCAATCTGTTGATCAACCACAGAGGAGAAGTCAAAA

Basic information

species Arabidopsis thaliana
transcript AT4G29810.2
intron # 4
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|164108329|gb|ES166441.1|ES166441
EST:     AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAA                         GTGCTTCAAGGA
genomic: AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGA
EST: gi|124859857|gb|EH944294.1|EH944294
EST:     GTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATACCTTAGACAA                         GTGCTTCAAGGATTAATCTA
genomic: GTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCAT-CTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGATTAATCTA
EST: gi|124766042|gb|EH856172.1|EH856172
EST:     AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAA                         GTGCTTCAAGGATTAATCT
genomic: AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGATTAATCT
EST: gi|116419430|gb|EG462022.1|EG462022
EST:     AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAA                         GTGCCTCAAGGATTAATCTATCTTCATCACGATAGGCATATCATCCATCGT
genomic: AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGATTAATCTATCTTCATCACGATAGGCATATCATCCATCGT
EST: gi|125205517|gb|EL220471.1|EL220471
EST:     CCCTGACTCCTATCTTTCTGCCATCTTTAGACAA                         GTGCTTCAAGGATTAATC
genomic: CCCTGACTCCTATCTTTCTGCCATCTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGATTAATC
EST: gi|124841317|gb|EH925754.1|EH925754
EST:     AAAGCCATCCCTGACTCCTATCTTTCTGTCCATCTTTAGACAA                         GTGCTTCAAGGATTAATCTATCTTCATCACGATAGGCATATCATCCATCG
genomic: AAAGCCATCCCTGACTCCTATCTTTCTG-CCATCTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGATTAATCTATCTTCATCACGATAGGCATATCATCCATCG
EST: gi|124958740|gb|EL033463.1|EL033463
EST:     AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAA                         GTGCTTCAAGGATTAATCTATCTTCATCACGATA
genomic: AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGATTAATCTATCTTCATCACGATA
EST: gi|125003495|gb|EL075764.1|EL075764
EST:     AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAA                         GTGCTTCAAGGATTAATCTATCTTCATCAC
genomic: AGTCAGTTAAAGCCATCCCTGACTCCTATCTTTCTGCCATCTTTAGACAAgtaagaaaca ... gttattgcagGTGCTTCAAGGATTAATCTATCTTCATCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacgcttcactgttaattggttgattgatgtgatttattggttctgttattgcagGTGCTTCAAGGATTAATCTATCTTCATCACGATAGGCATATCATCCATCGTGACTTGAAACCATCCAATCTGTTGATCAACCACAGAGGAGAAGTCAAAA
                                         ttctgtt  CT-rich tract
                              tgatttatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagaaacacaggatacacaggaaactatacgcttcactgttaattggttgattgatgtgatttattggttctgttattgcagGTGCTTCAAGGATTAATCTATCTTCATCACGATAGGCATATCATCCATCGTGACTTGAAACCATCCAATCTGTTGATCAACCACAGAGGAGAAGTCAAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT