Sequence
atgc intronic sequence ATGC exonic sequence...aacttctattcagtctattggccataatggacatctaattgccttggatattacttgatgttttctagcatggccttaacttctactttgtgaattacagGTAGATTACTCTGGATTTATGACTATAAATCCTCAAAGATTTGGGCAGAAATATGTTGGGAAG
Basic information
species | Glycine max |
transcript | GLYMA12G34750.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------------------------------------------------------------------------------------aacttctattca-gtctattggccataatggacatctaattgccttggatattacttgatgttttctagcatggccttaacttctactttgtgaattacagGTAGATTACTCTGGATTTATGACTATAAATCCTCAAAGATTTGGGCAGAAATATGTTGGGAAG
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gtaacttgtttccaagttttcttcaaactgctgcaaattctagcaacactcatataattaaacctttattttctaacccaactctagaggctaggctttgccagtttgatgcatgcacacccatagccacaaacagataattgttattaagaatattaaatga---ctgacaaaagactaagatctgcttcat--ctttcagGTAGATTATTCTGGATTTATGACGATAAATCCTCAAAGATTTGGACAGAAATATGTGGGAAAG
upper sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 12
-aacttctattcagtctattggccataatggacatcta-attgccttggatattacttgatgttttctagcatggccttaacttctactttgtgaattacagGTAGATTACTCTGGATTTATGACTATAAATCCTCAAAGATTTGGGCAGAAATATGTTGGGAAG
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tgatgtgtaaa-gggatgcaagcttttaagaacaatggcattgtggagtgtgtaacc-attaaatacaattttatccttagcctttcttttttatttaacagGTAGATTACTCTGGATTTATGACAATAAATCCTCAAAGGTTTGGGCAAAAGTATGTGGGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggatattacttgatgttttctagcatggccttaacttctactttgtgaattacagGTAGATTACTCTGGATTTATGACTATAAATCCTCAAAGATTTGGGCAGAAATATGTTGGGAAG
ccttaac putative branch site (score: 3)
atgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacttctattcagtctattggccataatggacatctaattgccttggatattacttgatgttttctagcatggccttaacttctactttgtgaattacagGTAGATTACTCTGGATTTATGACTATAAATCCTCAAAGATTTGGGCAGAAATATGTTGGGAAG
- - -ctattca
- - - - - - - ctattgg
- - - - - - - - - - - - - - - - - - - - -ccttgga
- - - - - - - - - - - - - - - - - - - - - - - - - - -cttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatggc