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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ACCATTGGGGCCTCCTCAGCCTCCGTCTTTAGCTCCTCAGCCGCCGCATCTTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttttcttctcttataacttgaaacgtttgtgtgtatctctctctctctctctctctctctctctctctctctctctctctctctctctctgat...

Basic information

species Arabidopsis thaliana
transcript AT2G30980.1
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|86048154|gb|DR343909.1|DR343909
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048164|gb|DR343919.1|DR343919
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048152|gb|DR343907.1|DR343907
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         G-AATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048153|gb|DR343908.1|DR343908
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGNCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048158|gb|DR343913.1|DR343913
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048162|gb|DR343917.1|DR343917
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048161|gb|DR343916.1|DR343916
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048155|gb|DR343910.1|DR343910
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048167|gb|DR343922.1|DR343922
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048168|gb|DR343923.1|DR343923
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048165|gb|DR343920.1|DR343920
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048159|gb|DR343914.1|DR343914
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|164038650|gb|ES006287.1|ES006287
EST:     GACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: GACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048163|gb|DR343918.1|DR343918
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGNCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|125238189|gb|EL252274.1|EL252274
EST:     CTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: CTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048160|gb|DR343915.1|DR343915
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048169|gb|DR343924.1|DR343924
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|152033639|gb|BP560678.2|BP560678
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|86048157|gb|DR343912.1|DR343912
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
EST: gi|124829587|gb|EH914178.1|EH914178
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATG
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATG
EST: gi|86048156|gb|DR343911.1|DR343911
EST:     TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAG                         GAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA
genomic: TTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttt ... ttgattttagGAAATGTCTGCTGCTGTTATAGAAGGAAATGATGCTGTTACCGGTCACATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ACCATTGGGGCCTCCTCAGCCTCCGTCTTTAGCTCCTCAGCCGCCGCATCTTCACGGCGGAGATTCTTTGAAACGTCGTCCCGATATAGACAACGACAAGgttagttttttcttctcttataacttgaaacgtttgtgtgtatctctctctctctctctctctctctctctctctctctctctctctctctctctctgat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctctct