Sequence
atgc intronic sequence ATGC exonic sequencegtaaagagggttcagaagacagcaaaaattccccaggcatttgaagtgatatctattttattttaattccattctgaattaaccatgcagGTAGCTATATTTCTTATCCAGAGAAACCGGCATGCTTTGATTGGTAGAGCTATGGATGACCATGATATGGAGAAAGTACTTCAGTTTTTGAAAAAAGACC
Basic information
species | Glycine max |
transcript | GLYMA07G02280.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G02280.2 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os04g23180.1 (Oryza sativa), 3'ss of exon 8
-gtaaagagggttcagaaga---cagcaaaaattccccaggcatttgaagtgatatctattttattttaattccattctgaattaa------ccatgcagGTAGCTATATTTCTTATCCAGAGAAACCGGCATGCTTTGATTGGTAGAGCTATGGATGACCATGATATGGAGAAAGTACTTCAGTTTTTGAAAAAAGACC
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caaaaggtgtactcatatgagtttgctgatgatttgcttctccaattttctcatccctgtccatgccttgttccaaattaaactattgtgctctctgtagGTTGCTATTTTTCTAATCCAGAGAAACAGGCATGCTTTAATTGGAAGGGCTATTGATGATCATGACATGCAGCGTGTTCTTGAGTTTCTGAAGGCTGATC
upper sequence: GLYMA07G02280.2 (Glycine max), 3'ss of exon 7
lower sequence: AT1G51610.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaaagagggttcagaagacagcaaaaattccccaggcatttgaagtgata-tctattttattttaattccattctgaattaaccatgcagGTAGCTATATTTCTTATCCAGAGAAACCGGCATGCTTTGATTGGTAGAGCTATGGATGACCATGATATGGAGAAAGTACTTCAGTTTTTGAAAAAAGACC
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---------gtatgtctgtgtctgtgctctccttaacttgttattatattactctatattacatttctaaactaaagagcaattcgactagGTTGCTATATTTCTAATTCAACGAAACCGACATGCCTTGATTGGAAGAGCAATGGATGATCAAGACATGAGTAAAGTTCTTAAATTTTTGAGAAATGACT
upper sequence: GLYMA07G02280.2 (Glycine max), 3'ss of exon 7
lower sequence: Vv09s0054g00220.t01 (Vitis vinifera), 3'ss of exon 8
gtaaagagggttcagaagacagcaa--aaattccccaggcatttgaagtgatatctattt---tattttaattccat---tctgaattaacc-----atgcagGTAGCTATATTTCTTATCCAGAGAAACCGGCATGCTTTGATTGGTAGAGCTATGGATGACCATGATATGGAGAAAGTACTTCAGTTTTTGAAAAAAGACC
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---aattagtatgagaatatgttatttatgttctataagaacaaaacgtatgacttattagcatggtttaaagtgatgtgtttgagttgaactttttattcagGTAGCTATATTTCTCATCCAGAGGAATCGGCATGCATTGATTGGTAGAGCAATTGATGCTCATGATATGGAAAAGGTTCTTAATTTGTTGAAAAATGATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcatttgaagtgatatctattttattttaattccattctgaattaaccatgcagGTAGCTATATTTCTTATCCAGAGAAACCGGCATGCTTTGATTGGTAGAGCTATGGATGACCATGATATGGAGAAAGTACTTCAGTTTTTGAAAAAAGACC
aattaac putative branch site (score: 2)
atatctattttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagagggttcagaagacagcaaaaattccccaggcatttgaagtgatatctattttattttaattccattctgaattaaccatgcagGTAGCTATATTTCTTATCCAGAGAAACCGGCATGCTTTGATTGGTAGAGCTATGGATGACCATGATATGGAGAAAGTACTTCAGTTTTTGAAAAAAGACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA