Sequence
atgc intronic sequence ATGC exonic sequencegttagttaatagttttgaaactttctttgtttgtgtaacttttaccgaaatttccaatctggaaataaattggttttctttgtctagtcaatcctgttttttttaatagatgtcgttgattgagttgtggattattgctttcttttccattagGCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAG
Basic information
species | Glycine max |
transcript | GLYMA04G05080.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G146688_T01 (Zea mays), 3'ss of exon 2
gttagttaatagttttgaaactttctttgtttgtgtaacttttaccgaaatttccaatctggaaataaattggttttctttgtctagtcaatcctgttttttttaatagatgtcgttga--ttgagttgtggattattgcttt--cttttccattagGCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAG
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-----------------------------------------gtacgtacgtacacgccgccgtgtcgagctagttgactg-gtccgtccg--cccgtccgtccatggagctgaagctgaagttgaaactaaaactaaaactgaaagtaattaagcagGCATAGGTGGACGGGGAGGTATGAGGCGCACCTGTGGGACAACAGCTGCAAGAAGGAAGGCCAGAGCAGGAAGGGCCGGCAAG
upper sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G37750.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagttaatagttttgaaactttctttgtttgtgtaacttttaccgaaatttccaatctggaaataaattggttttctttgtctagtcaatcctgttttttttaatagatgtcgttgattgagttgtggattattgctt------tcttttccattagGCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAG
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---------------------------------------------------------------------gttgtttttttattttataatattaaactttgtttgac---tttcgttagtaatgttacatatacttacttaaaaggttatgtgaaacagACATAGATGGACTGGTAGATATGAAGCTCATCTATGGGACAATAGTTTCAAGAAGGAAGGTCACAGTAGAAAAGGAAGACAAG
upper sequence: GLYMA04G05080.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv18s0001g08610.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------------gttagtta--atagttttgaaactttctttgtttgtgtaacttttaccgaaatttccaatctgga--aataaattg--gttttctttgtctagtcaatcctgttttttttaataga--tgtcgttgattgagtt------gtggattattgctttcttttccattagGCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAG
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gttagttcatattcttttccttcatctttggtcttatctataatgttttttgaattgagtttgttt-tctagtttat-ttgaggtctccctgcaggtgtattgtatcactgttttctctattatattgtcctcgccttttctgctggaaatattgtaggtttggttttccaagtaaacattgtcaatttatttccccagGCATAGATGGACTGGTAGATATGAAGCCCATCTTTGGGATAATAGTTGCAAGAAGGAGGGGCAGACTAGGAAAGGAAGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttaatagatgtcgttgattgagttgtggattattgctttcttttccattagGCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAG
ttattgctttcttttc CT-rich tract
taatagat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttaatagttttgaaactttctttgtttgtgtaacttttaccgaaatttccaatctggaaataaattggttttctttgtctagtcaatcctgttttttttaatagatgtcgttgattgagttgtggattattgctttcttttccattagGCATAGATGGACTGGTAGGTATGAAGCGCATTTGTGGGATAATAGTTGCAAGAAGGAAGGGCAAACTAGGAAAGGACGACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA