Sequence
atgc intronic sequence ATGC exonic sequence...ttaacttttaaatgtaatgacatatactctagcagggaaactagagagagaaaaaaatatttggaggaatatgtgcatgagattaatcatgtctgtgcagAGTGAGCTCCATGGATTAGCTGCTTTGCAGTGGTCGATTTGTCAAGACTCCCTCAGTAG
Basic information
species | Glycine max |
transcript | GLYMA12G04370.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G04370.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G38780.1 (Arabidopsis thaliana), 3'ss of exon 4
---ttaacttttaaatgtaatgacatatactctagcagggaaactagagagagaaaaaaatatttggaggaatatgtgcatgagattaatcatgtctgtgcagAGTGAGCTCCATGGATTAGCTGCTTTGCAGTGGTCGATTTGTCAAGACTCCCTCAGTAG
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ttatcgaaatcttaatcgattgatccac-ctagatcacctaaagttcttat-gttcgctgtagtagatgtgacct-taactagttccgagtttagttgtgcagAGTGAGCTTCATGGACTAGCGGCTTTGCAGTGGTCTATTTGTCAGGATTCACTTCGAAA
upper sequence: GLYMA12G04370.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0139g00280.t01 (Vitis vinifera), 3'ss of exon 4
ttaacttttaaatgtaatgacatatactctagcagggaaactagagagagaaaaaaatatttggaggaatatgtgcatgagattaatca--tgtctgtgcagAGTGAGCTCCATGGATTAGCTGCTTTGCAGTGGTCGATTTGTCAAGACTCCCTCAGTAG
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-ggggttgttattata-caaatttttctttagtgtagagaataattacacaagatttttgctcttttatttatttcatttcatatgtttgttttttgtgtagAGTGAACTTCATGGATTAGCTGCTTTGCAGTGGTCTATTTGTCTAGATTCACTCAGCGG
upper sequence: GLYMA12G04370.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0019g01030.t01 (Vitis vinifera), 3'ss of exon 4
ttaacttttaaatgtaatgacatatactctagcagggaaactagagagagaaaaaa-atatttggaggaatatgt-gcatgagattaatcatgtctgtgcagAGTGAGCTCCATGGATTAGCTGCTTTGCAGTGGTCGATTTGTCAAGACTCCCTCAGTAG
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-gaggttgttattattcagat-ttttctttggtgtggagaataattatacaagatttatgttcttttatttatttcatttcatatgtttgttgtttgtgcagAGTGAACTTCATGGATTAGCTGCTTTGCAGTGGTCTATTTGTCTAGATTCACTCAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagagaaaaaaatatttggaggaatatgtgcatgagattaatcatgtctgtgcagAGTGAGCTCCATGGATTAGCTGCTTTGCAGTGGTCGATTTGTCAAGACTCCCTCAGTAG
gattaat putative branch site (score: 3)
aaaaaaatatttgga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaacttttaaatgtaatgacatatactctagcagggaaactagagagagaaaaaaatatttggaggaatatgtgcatgagattaatcatgtctgtgcagAGTGAGCTCCATGGATTAGCTGCTTTGCAGTGGTCGATTTGTCAAGACTCCCTCAGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - catatac
- - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatga