Sequence
atgc intronic sequence ATGC exonic sequencegtacattttgattgccttttaactaggcatatatttgcattgtcataagctgattgaatatttttgcattgtttagGGTGATACACTTCAAAGGTGGAGAACAGAGCCGTATATCATGATAACTGGTAGTGGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G25060.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA08G34030.1 (Glycine max), 3'ss of exon 11
----------------------------------------------------------------------------------------------------------------------------gtacattttgattgccttttaactaggcatatatttgcattgtcataagctgattgaatatttttgcattgtttagGGTGATACACTTCAAAGGTGGAGAACAGAGCCGTATATCATGATAACTGGTAGTGGAAG
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gtacaacaatttcctttttgtgaagatgcattttagtttttgggaatgtgttgaatgttgattaaacataatgctcaagtactgtggcaatatattggcattaaagaatccataaaaggaaaaagtttatttgacataatggtgtgatatggatgtttttgaattggtgaatgacaatgtgttatttgcatgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
upper sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA16G15820.1 (Glycine max), 3'ss of exon 7
-----------------------gtacattttgat-tgccttttaactaggcatatatttgcattgtcataagctgattgaatatttttgcattgtttagGGTGATACACTTCAAAGGTGGAGAACAGAGCCGTATATCATGATAACTGGTAGTGGAAG
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ttaaacaatccataaaaggaaaaattttctttgacataatgttgtgatatagatgtttttgaattggtgattgacaatgtgttatttgcctgtaatgcagGGTGATACTCTTCAAAGATGGAGGACTGAACCTTTTATCATGATAACGGGTAGTGGAAG
upper sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 10
-------------gtacat-tttgattgccttttaactaggcatatatttgcattgtcataa--gctgattgaatattttt---gcattgtt-----tagGGTGATACACTTCAAAGGTGGAGAACAGAGCCGTATATCATGATAACTGGTAGTGGAAG
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agttttccatcatgtaaaggttctggagatttctgtttatgcattctatcaatgtggaacaatggatcactgattattttttatgcctctctaaatgcagGGTGATACTCTTCAAAGGTGGAGAACTGAGCCTTTCATCATGATAACTGGCAGTGGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaggcatatatttgcattgtcataagctgattgaatatttttgcattgtttagGGTGATACACTTCAAAGGTGGAGAACAGAGCCGTATATCATGATAACTGGTAGTGGAAG
tttttgc CT-rich tract
tgattgaatattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacattttgattgccttttaactaggcatatatttgcattgtcataagctgattgaatatttttgcattgtttagGGTGATACACTTCAAAGGTGGAGAACAGAGCCGTATATCATGATAACTGGTAGTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG