Sequence
atgc intronic sequence ATGC exonic sequence...ttacatgaagtggttgttattgattcacaagaaggcctcttactggttcattagatatgactacaatgatttttattctggaagcatgttatattgacagGCGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGGGA
Basic information
species | Glycine max |
transcript | GLYMA12G04480.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os11g29390.1 (Oryza sativa), 3'ss of exon 5
ttacatgaagtg-gttgttattgattcacaagaaggcctcttactggttcattagatatgactacaatgatttt--tattctggaagcatgttatattgacagGCGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGGGA------------
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---cagcagatgaggcataagtgaatattgttagattttagtttcttcacatgagctcccatgcttaccactttggtacaatgatacatttttctaccttcagGTTTTACAAGAGAAAGGCATTCATATTTGGGATGGCAATGCTTCGAGAGAGTATCTTGACAG
upper sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 4
ttacatgaagtggttgttattgattcacaagaaggcctcttactggttcattagatatgactacaat----gatttttattctggaagcatgttatattgacagGCGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGGGA------------------------------------
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-attattgtctcagagaaatttatttacaagt--ccttaatattaaaaaaaaaaac-taattatacttgaggaaatggattatagattgatgttattgcaatagGTGCTGCAGAAGAAAGACATTCATATATGGGATGGCAATGCATCCAGAGAGTACCTTGACAGGCAACTACTTGGCTATTGGAATCT
upper sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv03s0038g04500.t01 (Vitis vinifera), 3'ss of exon 6
-ttacatgaagtggttgttattgattcacaagaaggcctcttactggttcattagatatgactacaatgatttttattctggaa-gcatgttatattgacagGCGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGGGA------------
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tccaaataccttggtcaagattc-tcttctcttccatccagtatagatgtgaaattcagatcta-agtgtacatcattctaaaatgtttgtattgttaacagGTCCTACAGGAAAAGGGAATTCATATATGGGATGGCAATGCATCCAGGGACTACCTTGATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcattagatatgactacaatgatttttattctggaagcatgttatattgacagGCGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGGGA
tacaatgatttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttacatgaagtggttgttattgattcacaagaaggcctcttactggttcattagatatgactacaatgatttttattctggaagcatgttatattgacagGCGCTGCAGGAAAAAGGCATTCATATATGGGATGGCAATGCATCCAGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
-tacatga
- - - - -gtggttg
- - - - - - - - - - - attcaca
- - - - - - - - - - - - - - - gaaggcc
- - - - - - - - - - - - - - - - - - - cttactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gactaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgtt