Sequence
atgc intronic sequence ATGC exonic sequence...tggcttaatttgtataggatggtcccaggtttttctgttttggagaatttcttgtgttctctcttcatctttgttccccttttaatattggcttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATCAACAGTATTTCTTTCTCAACCGATGGGACTTACATAGCAACTGTTGGACGGGATG
Basic information
species | Glycine max |
transcript | GLYMA10G05890.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G53390.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------------------------------------------------------------tggcttaatttgtataggatggtcccaggtttttctgttttggagaatttcttgtgttctc-------tcttcatctttgttccccttttaatattggcttt--tgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATCAACAGTATTTCTTTCTCAACCGATGGGACTTACATAGCAACTGTTGGACGGGATG
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gtatgtgagtatgcaaccatttcaattgatccttatataggtgcgggaagcacatggtacatgcatatcctctactagtatcatcatttgctagtggttataagaaattattgtattacatactttcttttctatctttgagcatattttgatgtactattgtttattcatatgagtattcatgcagAGTAATCCTGTTGCGAGATGGCATATATGTCAAGGTTCAATTAACAGCATTGCATTCTCAAATGATGGGGCACACTTGGCAACTGTTGGAAGAGATG
upper sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 6
tggcttaatttgtataggatggtcccaggtttttctgttttggagaatttcttgtgttctctcttcatctttgttccccttt-taatattggcttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATCAACAGTATTTCTTTCTCAACCGATGGGACTTACATAGCAACTGTTGGACGGGATG
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tcctttaactttta-gagatgccatatgtagaaggaaaagtactacgcctttagaatttccacctgtcctatctttgcttacatattgtcatttgatgcagAGTAACCCAATTGCCAGATGGCATATTTGCCCAGGTTCAATTAATGGTGTTACTTTCTCAACTGATGGAGCCTATATTGCAACAGTCGGAAGAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttcttgtgttctctcttcatctttgttccccttttaatattggcttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATCAACAGTATTTCTTTCTCAACCGATGGGACTTACATAGCAACTGTTGGACGGGATG
ttttaat putative branch site (score: 3)
cttttgc putative PPT
ttttaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggcttaatttgtataggatggtcccaggtttttctgttttggagaatttcttgtgttctctcttcatctttgttccccttttaatattggcttttgcagAGTAATCCAATAGCCAGATGGCATATATGCCAGGGTTCAATCAACAGTATTTCTTTCTCAACCGATGGGACTTACATAGCAACTGTTGGACGGGATG
- - - - - - - - - - - - - - - - - -tgttttg