Sequence
atgc intronic sequence ATGC exonic sequence...tctttattcagaccattagtatataggaattttagttgttgaaaaagttaattgtccagtaggagcaaagactgacaatactaagcatttaaatttgaagCCGAGAGATTTTTGACAAGTGGCAAGCTCAAAAATGGTGGGGTGAGAATTATGACAGAATCATGGAACTTTACAACGTGCAGAGATTCAATCGACAAGCT
Basic information
species | Glycine max |
transcript | GLYMA01G35180.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G35180.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G35600.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------tctttattcagaccattagtatataggaattttagttgttgaaaaagttaattgtccagtaggagcaaagactgaca-atactaagcatttaaatttgaagCCGAGAGATTTTTGACAAGTGGCAAGCTCAAAAATGGTGGGGTGAGAATTATGACAGAATCATGGAACTTTACAACGTGCAGAGATTCAATCGACAAGCT
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gtatttgaaacccattctctccataacattttcaagaatatgtttcacttaaggacatag--aatgattcaatgtgaaatgaagctaacatatactt-gtatc-gtttttgaagCCGGGAGGTTTTCGACAAGTGGCAGGCTCAGAGGTGGTGGGGTGAGAACTATGACAGAATAGTTGAGCTTTACAATGTTCAAAGATTTAACCGACAAGCT
upper sequence: GLYMA01G35180.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G31880.1 (Arabidopsis thaliana), 3'ss of exon 4
tctttattcagaccattagtatataggaattttagttgttgaaaaagttaattgtccagtaggag-caaagactgacaatactaagcatttaaatttgaa-gCCGAGAGATTTTTGACAAGTGGCAAGCTCAAAAATGGTGGGGTGAGAATTATGACAGAATCATGGAACTTTACAACGTGCAGAGATTCAATCGACAAGCT
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---gtatttgaactact--caaaacaatctctatatcttcatggcattcaacgctgaaacatgagataaaaactaacaattacttgtgtcttgttttgaaagCCGAGAGATGTTTGATAAGTGGCAAGCTCAACGGTGGTGGGGTGAGAACTATGACAAGATCGTTGAGCTTTACAATGTACAGAGATTTAACCGCCAAGCT
upper sequence: GLYMA01G35180.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0033g00590.t01 (Vitis vinifera), 3'ss of exon 2
tctttattcagaccattagtatataggaattttagttgttgaaaaagttaattgtccagtaggagcaaagactga--caatactaagcattt-aaatttgaagCCGAGAGATTTTTGACAAGTGGCAAGCTCAAAAATGGTGGGGTGAGAATTATGACAGAATCATGGAACTTTACAACGTGCAGAGATTCAATCGACAAGCT
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-tttcatagaaactg--ggactttggggcctcaatttgcttgaaatatcttgagattttttgttgtggaaacttaattagcttttgggattccaaatttgaagCCGGGAGATGTTTAATAAATGGCAAGCTCAGCGATGGTGGGGAGAGAATTATGACCGGATCATGGAGCTGTACAATGTCCAGAGATTCAACCGCCAAGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttaattgtccagtaggagcaaagactgacaatactaagcatttaaatttgaagCCGAGAGATTTTTGACAAGTGGCAAGCTCAAAAATGGTGGGGTGAGAATTATGACAGAATCATGGAACTTTACAACGTGCAGAGATTCAATCGACAAGCT
gactgac putative branch site (score: 2)
taagcatttaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctttattcagaccattagtatataggaattttagttgttgaaaaagttaattgtccagtaggagcaaagactgacaatactaagcatttaaatttgaagCCGAGAGATTTTTGACAAGTGGCAAGCTCAAAAATGGTGGGGTGAGAATTATGACAGAATCATGGAACTTTACAACGTGCAGAGATTCAATCGACAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - cagacca
- - - - - - - - - - - - - - - - - gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - actgaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaagca