Sequence
atgc intronic sequence ATGC exonic sequence...gaagaattagttcctaacagtgtgatttactgactaccctattattttataatttcatttgataatggttgagtatcatgttcttattgtgttcatccagTGACTTTGGATCCATCTTTTCTACGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT
Basic information
species | Glycine max |
transcript | GLYMA13G27210.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 18
lower sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 17
gaagaattagttcctaacagtgtgatttactgact--accctattattttataatttcatttgataatggttgagtatcatgttcttattgtgttcatccagTGACTTTGGATCCATCTTTTCTACGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT
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-----gtgagttgctta---tttagtttctttacttaaccatgtgattc----acttctctttacgatatttaaa-gttggatccttatcgt-------tagGGATTTTGGTTCCATCTTTTCAACTCTACTACCTGGCACCATGTCAAAATTAGAACCTCCAGAGGGAGGTACTTTCCTTGATGGTCTTGAGGTCCGTGTT
upper sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 18
lower sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 17
------------------------gaagaattagttcctaacagtgtgat--ttactgactaccctattattttataatttcatttgataatggttgagtatcatgttcttattgtgttcatccagTGACTTTGGATCCATCTTTTCTACGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT
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gtgagtgtctttctaatctccaacaaagagtttgtctttgctcttaggctcatgatctcattcctcaatgtctgaaaagataatatgatattagcctt-tgttaaatccttctt---ttttattagGGATTTCGGATCAATCTTTTCAACTCTACTACCTGGCACCATGGCAAAACTAGAACCTCCTGAAGACGGTAACTTCCTTGATGGTCTTGAGGTGCGTGTT
upper sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 18
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 17
-------------------------------gaagaattagttcctaacagtgtgatttactgactaccctattattttataatttcat-----ttgataatggttgagtatcatgttcttattgtgttcatccagTGACTTTGGATCCATCTTTTCTACGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT
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gtgagtctattgcatcatgctagattacatggttcttttaattgatactaaaattaatcatttatttggttattgatctttgattttatagaacttgatgaagcttactattcataattttgtgtctcgttttcagGGACTTTGGATCCATCTTTTCTACTCTATTACCAGGCACAATGGCAAAGCTGGAACCTCCTGAAGGATGCAGTTTCTTGGATGGTCTTGAGGTTCGTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttataatttcatttgataatggttgagtatcatgttcttattgtgttcatccagTGACTTTGGATCCATCTTTTCTACGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT
atttgat putative branch site (score: 5)
ttcatcc putative PPT
aatttcatttgataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaagaattagttcctaacagtgtgatttactgactaccctattattttataatttcatttgataatggttgagtatcatgttcttattgtgttcatccagTGACTTTGGATCCATCTTTTCTACGCTACTACCGGGAACAATGGCCAAGTTAGAACCTCCAGAAGGATGCAGCTTCCTTGATGGTCTTGAGGTTCGTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - cctaaca
- - - - - - - - - - - - - - - - -ctaccct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggttgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catgttc