Sequence
atgc intronic sequence ATGC exonic sequence...aagaaagagtcatgatcactcataaataacatgcaaatctaaccgtgagaaaaatagagatgaaagatgaaaatctaacattatttatgtttgactacagATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATAC
Basic information
species | Glycine max |
transcript | GLYMA12G07570.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G052630_T02 (Zea mays), 3'ss of exon 6
---aagaaagagtc-atgatcactcataaataacatgcaaatctaaccgtgagaaaaatagagatgaaagatgaaaat-ctaacattatttatgtttgactacagATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATAC
|||| | || || ||| | | | || | ||| || || | | | | | || | | || | |||||||| |||| |||||| ||||||||||| |||||||| ||| ||||||| || ||
gtacagaaccactccattatcttcattggacatgattgagcatgaacacatgcgtttctacagctttctggtcatgttactgatggtccttgttcacgactacagGTTCAGTACTGCTCAGAAATTGGACAAACTTGGCATGAGAGGAAGCGACAC
upper sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G45300.1 (Arabidopsis thaliana), 3'ss of exon 8
-----------------------aagaaagagtcatgatcactcataaataacatgcaaatctaaccgtgagaaaaatagagatgaaagatgaaaatctaacattatttatgtttgactacagATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATAC
| | || | || | || | | ||| | ||| ||| | | | |||| | |||| | ||| || ||| | |||||||| |||||| ||||||||||| ||||| || ||||| ||||| |||||
gtatgtgaattctcaatcttgttgaaactgactttctatga-tctttagtaaagaactaatggaac----aaattcagagagtgagttccttaaaaccatttattgttgtggttgctttgcagATTCAGTACTGCTCAGAAATTGGACAAACTAGGAATGCGGGGAAGCGATAC
upper sequence: GLYMA12G07570.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g03140.t01 (Vitis vinifera), 3'ss of exon 8
aagaaagagtcatgatcactcataaataacatgcaaatctaaccgtgagaaaaatagagatgaaaga--tgaaaatctaacattatttatgtttgac--tacagATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATAC
| |||| |||| | || || | || ||| || | || | || | || || ||| | | | | |||| | | |||| | |||||||| |||||| |||||||| || ||||||||||||||||||||||| ||
-aattgcagtc-tgattgcagttatatta-gtg-aaagacaaaagcaaggaggttaacagtcaaggacatgatacttttttttaatttttttatgacaatgcagATTCAGTACTGCTCAGAAATTAGACAAACTTGGGATGCGAGGAAGTGACAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagaaaaatagagatgaaagatgaaaatctaacattatttatgtttgactacagATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATAC
aaaatctaacattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagaaagagtcatgatcactcataaataacatgcaaatctaaccgtgagaaaaatagagatgaaagatgaaaatctaacattatttatgtttgactacagATTCAATACTGCCCAGAAATTGGATAAACTTGGGATGCGAGGAAGTGATAC
aagaaaga
- - - - gtcatga
- - - - - - - -tcactca
- - - - - - - - - - - - - - acatgca
- - - - - - - - - - - - - - - - - - - - - - - - -aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaatc