Sequence
atgc intronic sequence ATGC exonic sequenceATTCCTGGCGAATCTGCAGGAAGTTGAGGATTGGTTGTATGAAGATGGGGAAGATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAGAAGgtaaaccatgcatatgatgacactttatattgtgcaggaagaaatcatatttcaggataatgttttaacagaggagtgggattaatattatgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79920.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os05g08840.1 (Oryza sativa), 5'ss of exon 6
ATTCCTGGCGAATCTGCAGGAAGTTGAGGATTGGTTGTATGAAGATGGGGAAGATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAGAAGgtaaaccatgcatatgatgacactttatattgtgcaggaagaaatcatatttcaggataatgttttaacagaggagtgggattaatattatgcag---------
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GTTTATTGCCAAGCTTCAGGAGGTTGAGGATTGGCTGTACGAAGATGGTGAAGATGAGACAAAAGGGGTTTATATTGCAAAGCTGGAAGAACTTAAAAAGgtacctctt-----ttattgcacttcttggtttacattgtgtctttatgtgttggtttggtttgttcttggacattgagttttgatatgcctgaacttttttag
upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os01g08560.1 (Oryza sativa), 5'ss of exon 7
ATTCCTGGCGAATCTGCAGGAAGTTGAGGATTGGTTGTATGAAGATGGGGAAGATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAGAAGgtaaaccatgcatatgatgacactttatattgtgcaggaagaaatcatatttcaggataatgttttaacagaggagtgggattaatattatgcag
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ATTCATTGCTAAGCTTCAAGAGGTTGAGGATTGGTTGTACGAAGATGGTGAGGATGAGACCAAAGGAGTGTATGTTGCTAAGCTTGAAGAACTTAAAAAGgtttgtctctttcat---------ttattttgctcctta------catcttgttagtttgtatattaaaaaaaagctatgatttttggt-cacag
upper sequence: AT1G79920.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv09s0002g04680.t01 (Vitis vinifera), 5'ss of exon 6
ATTCCTGGCGAATCTGCAGGAAGTTGAGGATTGGTTGTATGAAGATGGGGAAGATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAGAAGgtaaaccatgcatatgatgacactttatattgtgcaggaagaaatcatatttcaggataatgttttaacagaggagtgggattaatattatgcag
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GTTTACTGCTAAACTGCAGGAGGTAGAAGATTGGTTGTATGAAGACGGTGAGGATGAAACAAAAGGTGTTTACATTGCCAAACTCGAGGAACTTAAGAAGgtaat---tacactttctta-actccaaatggtttctttagtttgatcttcttagttttatggttgacgtgaaaaataaaaattgcag-------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|164151908|gb|ES159111.1|ES159111EST: GATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAGAA
genomic: GATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAGAA
EST:
gi|124757724|gb|EH847854.1|EH847854EST: AGATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAAGAA
genomic: AGATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAA-GAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTCCTGGCGAATCTGCAGGAAGTTGAGGATTGGTTGTATGAAGATGGGGAAGATGAGACCAAAGGTGTTTATGTTGCAAAGCTCGAGGAGCTCAAGAAGgtaaaccatgcatatgatgacactttatattgtgcaggaagaaatcatatttcaggataatgttttaacagaggagtgggattaatattatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG