Sequence
atgc intronic sequence ATGC exonic sequence...cttaattgagtagcttgtcttttgttgaatcctacattttaatctgcaatactttaattagtttattattctcgtactaaggtttactggcttattgcagGTGGTGGCAGTTCAGGTTGGCAAGCACCAGAGCAACTTGTTGAAGGACGTCAAACACGGGCAGTAGATATATTTAGTTTAGGTTGTGTCCTCTTTTTCTG
Basic information
species | Glycine max |
transcript | GLYMA16G21480.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G21480.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G17520.1 (Arabidopsis thaliana), 3'ss of exon 5
-----cttaattgagtagcttgtcttttgttgaatcctacattttaatc-tgcaatactttaattagtttattattctcgtactaaggtttactggcttattgcagGTGGTGGCAGTTCAGGTTGGCAAGCACCAGAGCAACTTGTTGAAGGACGTCAAACACGGGCAGTAGATATATTTAGTTTAGGTTGTGTCCTCTTTTTCTG
|| || | | | || |||||||||| | || | | || ||| || | | | ||| | | || | | | | ||||| ||||||||| || ||||||||||||||||| ||| | |||| |||||||| || ||||| ||||| |||||||||||||||||| |||||| |
agtgtctgaacgcaatgtatgatcgtttgttgaata-tgtgttatgtttatgaaatgagtt--tcaacccac-atttttaaagta--tctgctttaaaaactacagGTTCTGGCAGTTCGGGCTGGCAAGCACCAGAGCAGCTTCTACAAGGTCGTCAAACTCGTGCAGTCGATATGTTTAGTTTAGGTTGTGTCATCTTTTACAC
upper sequence: GLYMA16G21480.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0031g02180.t01 (Vitis vinifera), 3'ss of exon 4
-cttaattgagtagcttgtcttttgttgaatcctacattttaatctgcaatactttaattagtt-tattattctcgtactaaggtttactggctta--ttgcagGTGGTGGCAGTTCAGGTTGGCAAGCACCAGAGCAACTTGTTGAAGGACGTCAAACACGGGCAGTAGATATATTTAGTTTAGGTTGTGTCCTCTTTTTCTG
|| | || ||| | | | | | |||| | |||| | | || |||| || |||| || |||| || || | |||||||| ||||||||| |||||||| ||||| ||||| ||| || | ||||| |||||||| ||||||||| | |||||||||||||| ||||||||| |||
atttcactggcccccttcacaact-tagcaattcacatataaatcataagtggtt--attatttctattgagttcagtgatttattta-tgactcaatttgcagGTTATGGCAGTTCGGGTTGGCAGGCACCTGAGCAGCTTCTTCATGGACGCCAAACACGAGCAGTAGATTTGTTTAGTTTAGGTTGCATCCTCTTTTCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaatactttaattagtttattattctcgtactaaggtttactggcttattgcagGTGGTGGCAGTTCAGGTTGGCAAGCACCAGAGCAACTTGTTGAAGGACGTCAAACACGGGCAGTAGATATATTTAGTTTAGGTTGTGTCCTCTTTTTCTG
ctttaat putative branch site (score: 4)
actttaattagtttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttaattgagtagcttgtcttttgttgaatcctacattttaatctgcaatactttaattagtttattattctcgtactaaggtttactggcttattgcagGTGGTGGCAGTTCAGGTTGGCAAGCACCAGAGCAACTTGTTGAAGGACGTCAAACACGGGCAGTAGATATATTTAGTTTAGGTTGTGTCCTCTTTTTCTG
- - - - - - gcttgtc
- - - - - - - - - - - tgttgaa
- - - - - - - - - - - - - - -tcctaca
- - - - - - - - - - - - - - - - - - - - -atctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttactgg