Sequence
atgc intronic sequence ATGC exonic sequencegtaatttattattttactatcaagaatatgcttctgtataatactttcccattcccatttgattagttgggttataatttgttcttttgtttctaatagGCATTTTTGGCTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTATTGAAG
Basic information
species | Glycine max |
transcript | GLYMA01G38680.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G38680.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G66600.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatttattattttactatcaagaatatgcttctgtataatactttcccattcccatttgattagttgggttataatttgttcttttgtttctaatagGCATTTTTGGCTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTATTGAAG
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---gtaaaacctctttctttcaagaacttatctcagttt--ttctatacgcctacattttggtttctta--tcaaaatttctttgaatatattt--tagGCGTTTTTAGCTTATGGGATTCCACAGAACAATGTGAAGAGAGTCTTACTTCTACTCAAG
upper sequence: GLYMA01G38680.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s0207g00150.t01 (Vitis vinifera), 3'ss of exon 6
---gtaatttatt---attttactatcaagaatatgcttctgtataatactttcccattcccatttgattagttgggttataatttgttcttttgtttctaatagGCATTTTTGGCTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTATTGAAG
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gtaatgatccatcttgattaaactatga--aatttgcagggataccttgtttaaaagtttctaatgtgaaatgataatgataagagcttcttactctttgaacagGCATTTTTGGCATATGGTATACCGCAAACCAATGTAAAGAGAGTGTTTCTACTATTGAAG
upper sequence: GLYMA01G38680.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv00s0207g00120.t01 (Vitis vinifera), 3'ss of exon 9
------gtaatttattattttactatcaagaatatgcttctgtataatactttcccattcccatttgattagttgggttataatttgttcttttgtttctaatagGCATTTTTGGCTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTATTGAAG
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gtaatgatccttcttgattaaactatga--aatttgcaaggataccttgtttaaaagtttctaatgtgaaatgataatgataagagcttcttactctttgaacagGCATTTTTGGCATATGGTATACCGCAAACCAATGTAAAGAGAGTGTTTCTACTATTGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcccattcccatttgattagttgggttataatttgttcttttgtttctaatagGCATTTTTGGCTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTATTGAAG
atttgat putative branch site (score: 5)
tttgttcttttgtttc putative PPT
ttataatttgttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttattattttactatcaagaatatgcttctgtataatactttcccattcccatttgattagttgggttataatttgttcttttgtttctaatagGCATTTTTGGCTTATGGGATTCCACAAAACAATGTGAAAAGAGTCTTTCTTCTATTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG