Sequence
atgc intronic sequence ATGC exonic sequence...agaaaagtttggatttctgctattctgctgaatatctttaattaaattagttgctaattaccttcctaaacttttattgaatatcttttcatatttgcagCTATATATCAGCACTATCTGATGATCAGGAACAACCTGATTTACTAAAAACTGTTTCTTCAGGTTGGCCAGCTTCACTGCACTTGATTGGTAAG
Basic information
species | Glycine max |
transcript | GLYMA10G43550.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G43550.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G029055_T02 (Zea mays), 3'ss of exon 5
-----agaaaagtttggatttctgctattctgctgaatatctttaattaaattagttgctaattaccttcctaaacttttattgaatatcttttcatatttgcagCTATATATCAGCACTATCTGATGATCAGGAACAACCTGATTTACTAAAAACTGTTTCTTCAGGTTGGCCAGCTTCACTGCACTTGATTGGTAAG
| | || | || | | || | | | || || | | | | || | ||| | || | | || || | ||| || ||||| |||||| || |||||| || || | ||| | || ||||| | ||||||||||| ||||||||||||||||| |||
atcatgaacgaagatgaaattgtatc-tcctttttcttgttcccaac-aactgaagtac--ataatctta-tgtggttcagcctactttccctttgtctttttagGTATATTTCAGCATTACTAGATGATGGTGAGCAGGCAAGTTTGCAGCAAGCTGTTGATCATGGTTGGCCAGCCTCACTGCACTTGATTGGAAAG
upper sequence: GLYMA10G43550.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0019g00810.t01 (Vitis vinifera), 3'ss of exon 5
----agaaaagtttggatttctgctattctgctgaatatctttaattaaattagt-tgctaattaccttcctaaacttttattgaatatctttt-catatt-tgcagCTATATATCAGCACTATCTGATGATCAGGAACAACCTGATTTACTAAAAACTGTTTCTTCAGGTTGGCCAGCTTCACTGCACTTGATTGGTAAG
| | | | |||| ||||| || | || | | |||| | | |||| | | | ||||| |||| | | | | || || || | || ||||| ||||||||||| || || | |||||||||||||||| || | ||||||||||||||||| || || || ||||| ||||| |||
aacaatactaataaagattgctgctttt-------gtttccccattaaaatcattatgctgagttttcatttgaacttctattaactgtgtgttatatcttatttagTTATATTTCAGCACTATCAGAAGACAACGAACAACCTGATTTACAAAGTGCAGTTTCTTCAGGTTGGCCTGCCTCGCTACACTTAATTGGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attagttgctaattaccttcctaaacttttattgaatatcttttcatatttgcagCTATATATCAGCACTATCTGATGATCAGGAACAACCTGATTTACTAAAAACTGTTTCTTCAGGTTGGCCAGCTTCACTGCACTTGATTGGTAAG
tcctaaa putative branch site (score: 2)
tcttttcat putative PPT
taaacttttattgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaaagtttggatttctgctattctgctgaatatctttaattaaattagttgctaattaccttcctaaacttttattgaatatcttttcatatttgcagCTATATATCAGCACTATCTGATGATCAGGAACAACCTGATTTACTAAAAACTGTTTCTTCAGGTTGGCCAGCTTCACTGCACTTGATTGGTAAG
- - - - - - - ttctgct
- - - - - - - - - - - - ctgctga
- - - - - - - - - - - - - - - - - - - - - - - - -gttgcta