Sequence
atgc intronic sequence ATGC exonic sequence...tgtgccacataatatttcaatttgctcatagcatattcattattgatttagcttacttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGATTGCGTGTTCAACTTGCCATGTTATAGTCACG
Basic information
species | Glycine max |
transcript | GLYMA08G07780.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G07780.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g01930.1 (Oryza sativa), 3'ss of exon 5
---tgtgccacataatatttcaatttgctcatagcatattcattattgatttagcttacttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGATTGCGTGTTCAACTTGCCATGTTATAGTCACG
| || | || || | |||| | |||||| | | || | | | | ||| || | | || || || | |||||||||||||||||| || ||||||||||||| || ||||| ||||| | |
ttattgattacttgatgttatttgacatgtttcatgtattgactattgactgatttt--taattgtagttagtaacttggtctagtattttgggt-actgcagGAGCATGTGAAGGTTCACTTGCGTGTTCAACCTGTCATGTCATAGTTATG
upper sequence: GLYMA08G07780.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G013607_T02 (Zea mays), 3'ss of exon 5
--tgtgccacataatatttcaatttgctcatagcatattcattattgatttagctt-acttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGATTGCGTGTTCAACTTGCCATGTTATAGTCACG
|| |||| ||| | | || ||| || | | | || | ||| || ||| || | || ||| | || ||||||||||||||| ||||| |||||||||| ||||| ||||| ||||| | |
atcagtacattaggtattgtaatcattcctttttatgttc--catcaactgattttcagctgtagttcatgataaccttccctgcta-ttgtggctactgcagGAGCATGTGAGGGCTCACTTGCGTGTTCTACTTGTCATGTAATAGTAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttagcttacttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGATTGCGTGTTCAACTTGCCATGTTATAGTCACG
atttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgccacataatatttcaatttgctcatagcatattcattattgatttagcttacttgtccttttgcctaagctgatttcttacttgatgttattgcagGAGCATGTGAAGGCTCGATTGCGTGTTCAACTTGCCATGTTATAGTCACG
- tgccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctgatt