Sequence
atgc intronic sequence ATGC exonic sequence...aaattgtgatttaccatgttgtggtaattagtccttcaagatgttacattttttgcatgctcccaattaactaacttggctttgaattttgtttgaatagGGTTTTAGAAAGATTGTGCCTGATAGATGGGAGTTCGCGAATGAGTTCTTCAAGAAAGGAGAGAAGAACTTGTTGTGCGAGATTCACAGAAGAAAAACCC
Basic information
species | Glycine max |
transcript | GLYMA14G09190.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G09190.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G46264.1 (Arabidopsis thaliana), 3'ss of exon 1
---aaattgtgatttaccatgttgtggtaattagtccttcaagatgttacattttttgcatgctcccaattaactaacttg--gctttgaattttg-tttgaatagGGTTTTAGAAAGATTGTGCCTGATAGATGGGAGTTCGCGAATGAGTTCTTCAAGAAAGGAGAGAAGAACTTGTTGTGCGAGATTCACAGAAGAAAAACCC
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ccaaaaacagaagaaaaaatgt----gttcttgagatttggggtttttgagttttttgtcttcttcta--caagaaatctgatgttatgatctttgattttgttagGGTTTCAGAAAGATTGTACCAGATCGATGGGAGTTCGCGAACGAGTTTTTCAAGAGAGGAGAGAAACATTTACTCTGCGAAATCCACCGCCGTAAAACAT
upper sequence: GLYMA14G09190.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv18s0001g10380.t01 (Vitis vinifera), 3'ss of exon 1
------------------------------------aaattgtgatttaccatgttg-tggtaattagtccttcaagatgttacattttttgcatgctcccaattaacta-acttggctttgaat-tttgttt-----gaatagGGTTTTAGAAAGATTGTGCCTGATAGATGGGAGTTCGCGAATGAGTTCTTCAAGAAAGGAGAGAAGAACTTGTTGTGCGAGATTCACAGAAGAAAAACCC
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gtatgccttctctctcttcccccacttcccttcttcaaatcgtttctggagatgtaactggttatatatatatatatgaaacaagcttcttat-tgtttttactgatttagattttgttttgcttgcttgcttccggaaactagGGTTTTAGAAAGATTGTACCGGATAGATGGGAGTTTGCCAACGAGTTCTTCAAGAAAGGAGAGAAGCACTTACTCTGCGAGATCCATAGAAGAAAAACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acattttttgcatgctcccaattaactaacttggctttgaattttgtttgaatagGGTTTTAGAAAGATTGTGCCTGATAGATGGGAGTTCGCGAATGAGTTCTTCAAGAAAGGAGAGAAGAACTTGTTGTGCGAGATTCACAGAAGAAAAACCC
aactaac putative branch site (score: 1)
ttttgttt putative PPT
aattttgtttgaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaattgtgatttaccatgttgtggtaattagtccttcaagatgttacattttttgcatgctcccaattaactaacttggctttgaattttgtttgaatagGGTTTTAGAAAGATTGTGCCTGATAGATGGGAGTTCGCGAATGAGTTCTTCAAGAAAGGAGAGAAGAACTTGTTGTGCGAGATTCACAGAAGAAAAACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - -ccatgtt
- - - - - - - - - - - - - - - -tccttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -catgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggctttg