Sequence
atgc intronic sequence ATGC exonic sequencegtgatttgttagtatactatatttcattggttgcacgcgattattttacttgttataaatttttaaataaatttaaaacttacttatactccagATATCTTGCACCAAGGCCAGCAACAATGTTTCGTAATCGACTATGCATTGATGGTGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG
Basic information
species | Glycine max |
transcript | GLYMA08G19720.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19720.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G33270.2 (Arabidopsis thaliana), 3'ss of exon 4
gtgatttgttagtatactatatttcattggttgcacgcgattattttacttgttata-aatttttaaataaatttaaaacttacttatactccagATATCTTGCACCAAGGCCAGCAACAATGTTTCGTAATCGACTATGCATTGATGGTGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG---
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-----------gtaaatcac-tctcttgcttttgaaactttcagtttatccggaaaacaaaactttaacaa--ccagaattaaaaacaaatgcagATATCTTGCACCAAGGCCTGCAACAATGTTCCGTAATCGACTTTGTGTTGATGGAGGCTTGACATTGTTTATGCCACCAACAGCTGCTGCTAAAACAGTA
upper sequence: GLYMA08G19720.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G33270.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgatttgttagtatactatatttcattggttgcacgcgattattttacttgttata-aatttttaaataaatttaaaacttacttatactccagATATCTTGCACCAAGGCCAGCAACAATGTTTCGTAATCGACTATGCATTGATGGTGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG
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-----------gtaaatcac-tctcttgcttttgaaactttcagtttatccggaaaacaaaactttaacaa--ccagaattaaaaacaaatgcagATATCTTGCACCAAGGCCTGCAACAATGTTCCGTAATCGACTTTGTGTTGATGGAGGCTTGACATTGTTTATGCCACCAACAGCTGCTGCTAAAACA
upper sequence: GLYMA08G19720.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0034g01170.t01 (Vitis vinifera), 3'ss of exon 4
gtgatttgttagtatactatatttcattggt-tgcacgcgattatt--ttact--tgttataaatttttaaataaatttaaa--acttacttatactccagATATCTTGCACCAAGGCCAGCAACAATGTTTCGTAATCGACTATGCATTGATGGTGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG
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-------gtaaataatctatgtttcagaaacacttgttcaattagtacttgctgctgtgttagtttataaaatgaagttgaactaagtatgattaatgcagATATCTCGCACCAAGACCAGCAACACTGTTCCGGAATCGACTTTGCATTGATGGGGGTTTGACATTGTTTATGCCCCCAACATCCGCTTCTCAGACG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attattttacttgttataaatttttaaataaatttaaaacttacttatactccagATATCTTGCACCAAGGCCAGCAACAATGTTTCGTAATCGACTATGCATTGATGGTGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG
aacttac putative branch site (score: 2)
cttactt CT-rich tract
ttgttataaattttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatttgttagtatactatatttcattggttgcacgcgattattttacttgttataaatttttaaataaatttaaaacttacttatactccagATATCTTGCACCAAGGCCAGCAACAATGTTTCGTAATCGACTATGCATTGATGGTGGTTTGACATTGTTTATGCCACCGACATCTGCTGCACAAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC