Sequence
atgc intronic sequence ATGC exonic sequence...agatatttttgtcaacattcttaatttctacacactttgttgttttatttcagaaaatcaggccagggtttcattattaactttttaattactgttccagGAAGAAGGCTGGGTTGTGTGTAGAGTGTTCAAGAAGAGGATGACAACAACGCAGAAAGTGGGAGAGTATGATCAATCACCCTGTTGGTACGATGAGCAAG
Basic information
species | Glycine max |
transcript | GLYMA05G04250.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G04250.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G12260.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------agatatttttgtcaa-cattcttaatttctacacactttgttgttttatttcagaaaatcaggccagggtttcattattaactttttaattactgttccagGAAGAAGGCTGGGTTGTGTGTAGAGTGTTCAAGAAGAGGATGACAACAACGCAGAAAGTGGGAGAGTATGATCAATCACCCT---GTTGGTACGATGAGCAAG
|| ||| | || || ||| | | | | | | || | | | || || ||||||| ||| | ||||| | | ||| ||| |||||||||| |||||||||||||| || ||||||||||| || | || | ||||||| || || ||| || | |||||||||||| |
gtattaatataacaaccctaaaacattacttctctataaaagttagttgcatgtttatactaaacaatctcattatatg-atagttgcatatatgatctcctaaaatcat-ttgaggtaatctcattaaatgat--atttgggttgtagGAAGAAGGATGGGTTGTGTGTAGGGTTTTCAAGAAGAGATTGGCTGCAGTTAGACGAATGGGAGATTACGACTCATCCCCTTCACATTGGTACGATGATC---
upper sequence: GLYMA05G04250.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0154g00020.t01 (Vitis vinifera), 3'ss of exon 2
-agatatttttgtcaacattcttaatttctacacactttgttgttttatttcagaaaatcaggccagggtttcattattaactttttaattactgttccagGAAGAAGGCTGGGTTGTGTGTAGAGTGTTCAAGAAGAGGATGACAACAACGCAGAAAGTGGGAGAGTATGATCAATCACCCTGTTGGTACGATGAGCAAG-------
| | | ||| | ||| ||| | | | || ||||| || | || | | | || | | | || | || ||||||||||| ||||| || ||||| || ||||||||||| ||| |||||| || ||||||||| || ||| ||||| |||||||| ||||| ||||
ctattttatgtgtttgccttcc-aatcttagtgctcacaattcttttagttt--gatatgaagttattgtgcc--tgaagatattactgcaattgcatcaggaagAAGGATGGGTCGTTTGTAGGGTATTCAAGAAGAGAATGGCAACAATGCGGAAAGTGGGTGAACATGG---GTCACCATGTTGGTATGATGACCAAGTTTCATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttcagaaaatcaggccagggtttcattattaactttttaattactgttccagGAAGAAGGCTGGGTTGTGTGTAGAGTGTTCAAGAAGAGGATGACAACAACGCAGAAAGTGGGAGAGTATGATCAATCACCCTGTTGGTACGATGAGCAAG
ctgttcc CT-rich tract
tttcattattaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agatatttttgtcaacattcttaatttctacacactttgttgttttatttcagaaaatcaggccagggtttcattattaactttttaattactgttccagGAAGAAGGCTGGGTTGTGTGTAGAGTGTTCAAGAAGAGGATGACAACAACGCAGAAAGTGGGAGAGTATGATCAATCACCCTGTTGGTACGATGAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - -tgtcaac
- - - - - - - - - - - - - - tacacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaggcc