Sequence
atgc intronic sequence ATGC exonic sequencegttgtttggaattcatttgctttatcattttttgtgttattttttaataaatattttacactttaatatctatcaattgtgtaaaagacttaccattattctcctgcctgttgcagGCTCTTGTGGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTCATAAGTGATGCTATCAATAGTGCTCTTCAAATTAAG
Basic information
species | Glycine max |
transcript | GLYMA16G14060.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G24870.1 (Arabidopsis thaliana), 3'ss of exon 15
gttgtttggaattcatttgctttatcattttttgtgttattttttaataaatattttacactttaatatctatcaattgtgtaaaagacttaccattattctcctgcctgttgcagGCTCTTGTGGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTCATAAGTGATGCTATCAATAGTGCTCTTCAAATTAAG
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------------------------gttttttattcgtcatctttcattaa-cat----cgatgtactgttggttgctt-tatgagtatctaatttattttttcctacc--atatagGCGCTTGTTGTCCTGGTGCATGATATGGGGCCTAACTGGGAGCTCATTAGTGATGCAATGAACAGCACTCTTAAAATTAAG
upper sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 17
lower sequence: AT3G24880.1 (Arabidopsis thaliana), 3'ss of exon 14
gttgtttggaattcatttgctttatcattttttgtgttattttttaataaatattttacactttaatatctatcaattgtgtaaaagacttaccattattctcctgcctgttgcagGCTCTTGTGGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTCATAAGTGATGCTATCAATAGTGCTCTTCAAATTAAG
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------------------------gttttttattcgtcatctttcattaa-cat----cgatgtactgttggttgctt-tatgagtatctaatttatctttttctacc--atatagGCGCTTGTTGTCCTGGTGCATGATATGGGCCCTAACTGGGAGCTCATTAGTGATGCAATGAACAGCACTCTTAAAATTAAG
upper sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 15
gttgtttggaattcatttgctttatcattttttg-tgttattttttaataaatattttacactttaatatctatcaattgtgtaaaagacttaccattattctcctgcctgttgcagGCTCTTGTGGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTCATAAGTGATGCTATCAATAGTGCTCTTCAAATTAAG
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-------gttattc--ttcctttttctttttctgatgttgtctttt--------ttattcttagtgatagaaagtaaaagtgctgaagttttactagtgttat------tattatagGCACTTGTGGTCCTTGTACATGATATGGGTGCAAATTGGGAGCTTGTAAGTGATGCTATCAACAGCACTCTCCAATTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaatatctatcaattgtgtaaaagacttaccattattctcctgcctgttgcagGCTCTTGTGGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTCATAAGTGATGCTATCAATAGTGCTCTTCAAATTAAG
gacttac putative branch site (score: 2)
ttattctcctgcct putative PPT
tatcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttggaattcatttgctttatcattttttgtgttattttttaataaatattttacactttaatatctatcaattgtgtaaaagacttaccattattctcctgcctgttgcagGCTCTTGTGGTCCTGGTGCATGATATGGGTCCAAACTGGGAGCTCATAAGTGATGCTATCAATAGTGCTCTTCAAATTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA