Sequence
atgc intronic sequence ATGC exonic sequencegtttgttcttattgcaaactatgttgcattaagctttttcagttttcacctttcagtgtgtgaactcatgttttaaatgtctgacagGATGCTGAAGAATGTTGGACACAACTGTTATACACCCTTTCTCAGTCCCTAAAAGCACCAACTTCCAGCGAAGGTGCTGATGCTGTGAAAGCTCTATTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G51710.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 7
gtttgttctta--ttgcaaacta---tgttgcattaagctttttcagttttcacctttcagtgtgtgaactcat---gttttaaatgtctgacagGATGCTGAAGAATGTTGGACACAACTGTTATACACCCTTTCTCAGTCCCTAAAAGCACCAACTTCCAGCGAAGGTGCTGATGCTGTGAAAGCTCTATTTG
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----gtttttaagttgcatgccaccttatggaattagttttattgctctagtagtgaactgtatacctacctattttatttttcatgtctaatagGATGCTGAAGAATGTTGGACACAACTTTTATACACACTCTCTCAGTCCCTCAGATCCCCTGGATCTAG--------------------------------
upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G20900.1 (Glycine max), 3'ss of exon 7
gtttgttctta--ttgcaaactatgttgcattaagctttttcagttttcacctttcagtgtgtgaactcat-------gttttaaatgtct-gacagGATGCTGAAGAATGTTGGACACAACTGTTATACACCCTTTCTCAGTCCCTAAAAGCACCAACTTCCAGCGAAGGTGCTGATGCTGTGAAAGCTCTATTTG
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----gtttttaagtttcatgccaccttatggaattagttttattgctctagtagtgaatatgtatacctatctattttatttttcatgtcttaacagGATGCTGAAGAATGTTGGACACAACTTCTATACACTCTCTCTCAGTCCCTCAGATCCCTTGGAATTAG--------------------------------
upper sequence: AT1G51710.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 3'ss of exon 7
--gtttgttcttattgcaaactatgttgcattaagctttttcagttttcacctttcagtgtgtgaactcatg---ttttaaatgtctgacagGATGCTGAAGAATGTTGGACACAACTGTTATACACCCTTTCTCAGTCCCTAAAAGCACCAACTTCCAGCGAAGGTGCTGATGCTGTGAAAGCTCTATTTG
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gttttcaattcttttgtcaccca-gtcatagca-gtgtaactgctttaaatctgttagtaaattaattcatacattttaaaacttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAG-------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctttttcagttttcacctttcagtgtgtgaactcatgttttaaatgtctgacagGATGCTGAAGAATGTTGGACACAACTGTTATACACCCTTTCTCAGTCCCTAAAAGCACCAACTTCCAGCGAAGGTGCTGATGCTGTGAAAGCTCTATTTG
atgttttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttcttattgcaaactatgttgcattaagctttttcagttttcacctttcagtgtgtgaactcatgttttaaatgtctgacagGATGCTGAAGAATGTTGGACACAACTGTTATACACCCTTTCTCAGTCCCTAAAAGCACCAACTTCCAGCGAAGGTGCTGATGCTGTGAAAGCTCTATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG