Sequence
atgc intronic sequence ATGC exonic sequence...actttcctgaaaatagtttaaaagtttttgaaataatttcccttcatatgttattgacttgatctttccatatttgctttcttccccatccttactgtagGGAGCTGCAACAACATGCTATGTAGCATTGCATCCACAAGTGAGGGAAATCAGTGGCAAATATTTTTCAGATTGTAATATTGCCCCAACAATCTCAAAGG
Basic information
species | Glycine max |
transcript | GLYMA16G30060.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G30060.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G464885_T01 (Zea mays), 3'ss of exon 7
actttcctgaaaatagtttaaaagtttttgaaataatttcccttcatatgttattgacttgatctttccatatttgctttcttccccatccttactgtagGGAGCTGCAACAACATGCTATGTAGCATTGCATCCACAAGTGAGGGAAATCAGTGGCAAATATTTTTCAGATTGTAATATTGCCCCAACAATCTCAAAGG
||| || | | || || | ||| || | | | | | | || |||| || | ||| || | |||| |||||||| ||||||||||| ||| ||||||| |||||||||| || ||||| || || || | ||||| || | ||| | | |||| | |
------------gtaggttttcacctcttattttactgctggcgcatttgcagatcatgcactgatccta-atcaactttgtttc--atctttttt-cagGGTGCTGCAACGACATGCTATGTTGCAATGCATCCTCAAGTGAGGGGGATAAGTGGAAAGTACTTCACCAATTGTGATGTAGCCAACCCGAGCTCACAAG
upper sequence: GLYMA16G30060.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G128577_T01 (Zea mays), 3'ss of exon 6
actttcctgaaaatagtttaaaagtttttgaaataatttccc-ttcatatgttattg--acttg-atctttccatatttgctttcttccc-catccttactgtagGGAGCTGCAACAACATGCTATGTAGCATTGCATCCACAAGTGAGGGAAATCAGTGGCAAATATTTTTCAGATTGTAATATTGCCCCAACAATCTCAAAGG
| | | || | ||| | ||||| || ||| | | | | ||| | || || || || | | || ||| ||| || | |||| ||||| |||||||||||||| ||| ||||||| ||||||| || | ||||| || || ||| | | |||||||| ||| | | ||| | |
gttggctttaacct--ttttgattttttttaattaactccgcgcgcccttgtcggcggaacatgcattggcccttgactaattccttttaatatctttgtta-agGGCGCTGCGACAACATGCTATGTGGCAGTGCATCCTCAAGTGAAGGGGCTAAGTGGGAAGTACTTTGCTAACTGTAATATAGCCAGCCCGAGCTCGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgttattgacttgatctttccatatttgctttcttccccatccttactgtagGGAGCTGCAACAACATGCTATGTAGCATTGCATCCACAAGTGAGGGAAATCAGTGGCAAATATTTTTCAGATTGTAATATTGCCCCAACAATCTCAAAGG
tccttac putative branch site (score: 2)
tctttccatatttgct CT-rich tract
atattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actttcctgaaaatagtttaaaagtttttgaaataatttcccttcatatgttattgacttgatctttccatatttgctttcttccccatccttactgtagGGAGCTGCAACAACATGCTATGTAGCATTGCATCCACAAGTGAGGGAAATCAGTGGCAAATATTTTTCAGATTGTAATATTGCCCCAACAATCTCAAAGG
- - tcctgaa
- - - - - - - - - - - - - - - - - - - tcccttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgacttg