Sequence
atgc intronic sequence ATGC exonic sequence...gttcacattcaacatatattattaagttatcctaatattttaatttccaataaaacaattaaaatctatgttttgttatttaaatgtttaattattacagGTTAATAGAGGTCTTTTATCTTCAGGAATTATGGCTTCTTACGTTGTTTTCCTTTGTTGGAATGCAATCAGAAG
Basic information
species | Glycine max |
transcript | GLYMA20G19930.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G19930.1 (Glycine max), 3'ss of exon 6
lower sequence: AT2G33205.1 (Arabidopsis thaliana), 3'ss of exon 6
gttcacattcaacatatattattaagttatcctaatattttaatttccaataaaacaattaa-aatctatgttttgttatttaaatgtttaattattacagGTTAA---TAGAGGTCTTTTATCTTCAGGAATTATGGCTTCTTACGTTGTTTTCCTTTGTTGGAATGCAATCAGAAG
|| || |||||| |||| || || |||| | |||| || || | || ||| || | | |||| || |||||||||||| ||||| || ||||||||||||||| |||| ||||| |||||| ||| ||||||||
---------------------gtacatt-tcctaa-gttttgcttaaaggtagcacaaagattgatctctgcttcga-atactgatgctttgcattaaaagGTGAAGAATAGAGGTCTTTTGTCTTCCGGGATTATGGCTTCTTACATTGTCTTCCTATGTTGGTCTGCGATCAGAAG
upper sequence: GLYMA20G19930.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0051g00380.t01 (Vitis vinifera), 3'ss of exon 6
--gttcacattcaacatatattattaagttatcctaatattttaatttccaataaaacaattaaaatctatgttttgttatttaaatgtttaattattacagGTTAATAGAGGTCTTTTATCTTCAGGAATTATGGCTTCTTACGTTGTTTTCCTTTGTTGGAATGCAATCAGAAG
|| | | | | |||| | ||| || | || || || | | ||| | ||| || | ||| ||| | || | ||| |||||| ||||||||||| ||||||||||| || ||||||||||| |||||||||| |||||| ||| ||||||||
ttttttttttccttctctttttatcatgtt-tcaccaggttcctatcaacataatagtcattgtagtctctgatatgtgatt-atttggatgcttagaacagGTCAATAGAGGTCTCTTATCTTCAGGGATCATGGCTTCTTATATTGTTTTCCTCTGTTGGTCTGCTATCAGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccaataaaacaattaaaatctatgttttgttatttaaatgtttaattattacagGTTAATAGAGGTCTTTTATCTTCAGGAATTATGGCTTCTTACGTTGTTTTCCTTTGTTGGAATGCAATCAGAAG
gtttaat putative branch site (score: 4)
aattaaaatctatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcacattcaacatatattattaagttatcctaatattttaatttccaataaaacaattaaaatctatgttttgttatttaaatgtttaattattacagGTTAATAGAGGTCTTTTATCTTCAGGAATTATGGCTTCTTACGTTGTTTTCCTTTGTTGGAATGCAATCAGAAG
- - acattca
- - - - - - - - - - - - - - - - - - - - - - - - aataaaa