Sequence
atgc intronic sequence ATGC exonic sequence...ttttctatcttctatgatcacctgcatttctcttgttttggttagatgttaatctccttagtgtgatttattaacttggtactattgattttgatatcagCTAGGAAGCTTTTTGCTTTTTGTTTTCGTCTTTGCGCGTGTCCCATTCTCTTCTCCAAAGTTCCCTATAATAGTGAAAGCTCATCAAGTTATTTAGCTCT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G21560.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G21560.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G06280.1 (Glycine max), 3'ss of exon 1
ttttctatcttctatgatcacctgcatttctcttgttttggttagatgttaatctccttagtgtgatttattaacttggtactattgattttgatatcagCTAGGAAGCTTTTTGCTTTTTG---------TTTTCGTCTTTGCGCGTGTCCCATTCTCTTCTCCAAAGTTCC-CTATA---ATAGTGAAAGCTCATC--AAGTTATTTAGCTCT-----
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--------------tgatgaaata-atggtgttagtt---gttagatctccctttggt-gttgtgatcttttagct-gtagttatcatgctgagttttgggtcttgtgttttttcttcagTAAAGAAGAAACCTTTCTCTTTGCGCGTGTCCCGTTCTCTTCTCCAATCCTCCTCCATCCCCACTGTGTGATCTGATCCTAAACCTTATAGCCATGACTA
upper sequence: AT4G21560.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA07G31030.1 (Glycine max), 3'ss of exon 1
ttttctatcttctatgatcacctgc---atttctcttgttttggttagatgttaatc-tccttagtgtgatttattaacttggtactattgattttgatatcagCTAGGAAGCTTTTTGCTTTTTGTTTTCGTCTTTGCGCGTGTCCCATTCTCTTCTCCAAAGTTCC-CTATA---ATAGTGAAAGCTCATC--AAGTTATTTAGCTCT------
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gtgttgaaataatggtgtcaattgtcagatcccccttgtggtgttgtgatattagcagtggttaacatgctgagtt---ttgggtcttgtgtttttcct-tcagTGAAGAAGAACCCTTCT------------CTTTGCGCGTGTCCCGTTCTCTTCTCCAATCCTCCTCCATCCCCACTGTGTGATCTGATCCTAAATCCTATAGCCATGACTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgttaatctccttagtgtgatttattaacttggtactattgattttgatatcagCTAGGAAGCTTTTTGCTTTTTGTTTTCGTCTTTGCGCGTGTCCCATTCTCTTCTCCAAAGTTCCCTATAATAGTGAAAGCTCATCAAGTTATTTAGCTCT
tattgattttgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttctatcttctatgatcacctgcatttctcttgttttggttagatgttaatctccttagtgtgatttattaacttggtactattgattttgatatcagCTAGGAAGCTTTTTGCTTTTTGTTTTCGTCTTTGCGCGTGTCCCATTCTCTTCTCCAAAGTTCCCTATAATAGTGAAAGCTCATCAAGTTATTTAGCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - gttttgg