Sequence
atgc intronic sequence ATGC exonic sequence...ttttttgctgatgaaaaatctataactatttggtctgagtttcattaaatcgacttaatttaggatcttcccggtgcactcgatgatgcggctgttacagAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAACTTGTGCTGTGAAAGGCGAGGGACTTTTCGAGGGATTGGACTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G24765.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G24765.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv04s0008g07360.t01 (Vitis vinifera), 3'ss of exon 6
----------------------ttttttgctgatgaaaaatctataactat---------ttggtctga--gtt----tcattaaatcgacttaatttaggatcttcccggtgcactcgatgatgcggctgttacagAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAACTTGTGCTGTGAAAGGCGAGGGACTTTTCGAGGGATTGGACTG
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acccaatgtggtgacaattttctctgctcttgatggaattcttagaactttggttcatgattcatctgatggttcagctcactgttttaatgtaaattagGATCTTCCTGGTGCACTTGATGATGCTGCTTTAACAGAAGCTTTGGAGTTGCACAAGATAAAAAACCGCCAATGGGCTATTTTTAAAACTTGCGCCATAA-------------------------------
upper sequence: AT2G24765.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv11s0052g01720.t01 (Vitis vinifera), 3'ss of exon 7
------------------------------ttttttgctgatgaaaaatctataactatttggtctgagtttcattaaat-------cgacttaatttaggatcttcccggtgcactcgatgatgcggctgttacagAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAACTTGTGCTGTGAAAGGCGAGGGACTTTTCGAGGGATTGGACTG
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agcttcatcctctatgaactttctgcgcataaatccatctgtgaaatttgtgtgtttagttgattgttttttctttctcttttttccctgttctatatagGATCTTCCTGGTGCACTTGATGATGCTGCTGTGACTGAGGCCTTAGAGTTGCACAAGATTAAAAACCGTCAATGGGCAATTTTTAAAACTTCTGCCATAA-------------------------------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|86084655|gb|DR380414.1|DR380414EST: GAAGATGAATTGAAAGGTGCGGTGGTTCTGATATTTGCAAACAAGCAG AAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAA
genomic: GAAGATGAATTGAAAGGTGCGGTGGTTCTGATATTTGCAAACAAGCAGgttagtagtc ... gctgttacagAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatcgacttaatttaggatcttcccggtgcactcgatgatgcggctgttacagAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAACTTGTGCTGTGAAAGGCGAGGGACTTTTCGAGGGATTGGACTG
acttaat putative branch site (score: 4)
acttaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttttgctgatgaaaaatctataactatttggtctgagtttcattaaatcgacttaatttaggatcttcccggtgcactcgatgatgcggctgttacagAAGCCTTGGAGTTGCATAAGATAAAGAGTCGTCAATGGGCAATCTTCAAAACTTGTGCTGTGAAAGGCGAGGGACTTTTCGAGGGATTGGACTG
- - - - - - gaaaaat
- - - - - - - - - - - - - tatttgg
- - - - - - - - - - - - - - - - - - - - - cattaaa