Sequence
atgc intronic sequence ATGC exonic sequencegtaaaatctctttctttatcggcagttttgacggatttatgattagtttagtgttgatgttacctgttctcaaactctttgtgcaaggaacttagaattcttcattacttttggcagATAATCTATTGCAACATTGGGAATCCTCAATCTCTTGGTCAGCTGCCTATAAAGTTCTTCCGTGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G72330.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G72330.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os10g25130.1 (Oryza sativa), 3'ss of exon 3
gtaaaatctctttctttatcggcagttttgacggatttatgattagtttagtgttgatgttacctgttctcaaactctttgtgcaaggaacttagaattcttcattacttttggcagATAATCTATTGCAACATTGGGAATCCTCAATCTCTTGGTCAGCTGCCTATAAAGTTCTTCCGTGAG
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-----------------------------------------gttagta-actatcaatttaacataaaggagcttttcctggtagattattttctcattctgttttccccttg-cagATCCTATACTGCAACATTGGGAATCCCCAGTCTCTTGGTCAGAAGCCAGTTACATTCTTCAGGGAG
upper sequence: AT1G72330.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G088064_T03 (Zea mays), 3'ss of exon 3
gtaaaatctctttctttatcggcagttttgacggatttatgattagtttagtgttgatgttacctgttctcaaactctttgtgcaaggaacttagaattcttcattacttttggcagATAATCTATTGCAACATTGGGAATCCTCAATCTCTTGGTCAGCTGCCTATAAAGTTCTTCCGTGAG
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-----------gtacctaactgttgatttaaaag-ttcattgaaagtgcctttatctttcctttttttttcaaaaa--ttatatagtccgttccaattatatttgtacccttg-cagATCCTCTATTGCAACATTGGGAATCCCCAATCTCTTGGTCAGCAACCTGTGACATTCTTCAGGGAG
upper sequence: AT1G72330.3 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0002g00340.t01 (Vitis vinifera), 3'ss of exon 3
gtaaaatctctttctttatcggcagttttgacggatttatgattagtttagtgttgatgttacctgttctcaaactctttgtgcaaggaacttagaattcttcattacttttggcagATAATCTATTGCAACATTGGGAATCCTCAATCTCTTGGTCAGCTGCCTATAAAGTTCTTCCGTGAG
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--------------taaagatgtgcctctaatgccaccatttttgcaataaaatttgccttatgtgtagc---agcctttctacttgtgaactgttttttcccctggtctcatacagATACTTTACTGCAACATTGGAAATCCTCAATCTCTTGGTCAACAGCCAATTACTTTTTTCCGAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctgttctcaaactctttgtgcaaggaacttagaattcttcattacttttggcagATAATCTATTGCAACATTGGGAATCCTCAATCTCTTGGTCAGCTGCCTATAAAGTTCTTCCGTGAG
ttcttcattactttt CT-rich tract
attactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaatctctttctttatcggcagttttgacggatttatgattagtttagtgttgatgttacctgttctcaaactctttgtgcaaggaacttagaattcttcattacttttggcagATAATCTATTGCAACATTGGGAATCCTCAATCTCTTGGTCAGCTGCCTATAAAGTTCTTCCGTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC