Sequence
atgc intronic sequence ATGC exonic sequence...atgacatatcatttatgttagatgctcatactcttatttatgaatgtgctttaaaatggtttgatcaatttagtgatttttttcttttctggaaaagcagAATATAGTACATCTGGATATTAAGCCAGATAATCTGTTGATTACTTGTCATGGTACAGTAAAGATAGGGGATTTCAGTGTCAGCCAGGCTTTTGAG
Basic information
species | Glycine max |
transcript | GLYMA12G07340.4 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G60550.1 (Arabidopsis thaliana), 3'ss of exon 8
atgacatatcatttatgttagatgctcatactcttatttatgaatgtgctttaaaatggtttgatcaatttagtgatttttttcttttctggaaaagcagAATATAGTACATCTGGATATTAAGCCAGATAATCTGTTGATTACTTGTCATGGTACAGTAAAGATAGGGGATTTCAGTGTCAGCCAGGCTTTTGAG
| || | || | | |||| |||| | || | |||| | | |||| | | ||| | |||| ||| || | | || ||| ||||| || || ||| || || ||||| || |||||||| |||||||| ||||||||||||||||| | ||| ||
gtatgatcttcattgtttagcgtgctt---ctctcacttcatggttcatcacctaatgctgtcttcaa-------actgtttctatggggaaaaaaacagGATGTTATTCACGGGGACATTAAACCCGACAATTTGCTGGTTACTAGTAGCGGTACAGTGAAGATAGGAGATTTCAGTGTCAGCCAAGTTTTCAAG
upper sequence: GLYMA12G07340.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 8
atgacatatcatttatgttagatgctcatactcttat-ttatgaatgtgct----ttaaaatggtttgatcaatttagtgatttttttcttttctggaaaagcagAATATAGTACATCTGGATATTAAGCCAGATAATCTGTTGATTACTTGTCATGGTACAGTAAAGATAGGGGATTTCAGTGTCAGCCAGGCTTTTGAG
| | | | |||| ||| | | | | | ||| | | |||| | || | |||| |||| || |||| | || || || | ||||||||||| ||| ||| ||||| ||||| ||||| ||| ||||| | ||||||||| ||||||| |||||| ||||||||||||| ||||||
-ttgcct-tgatttcaattaccttccctttttgttacactggaagtgtgtagctatcaatacaatttggatc-tttattgcttttctcctcttt--aaacaacagAATATAGTGCATGGGGACATTAAACCAGACAATCTTTTGGTTACTCGCACTGGTACAGTGAAGATAGCGGATTTTAGTGTCAGCCAGGTATTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgctttaaaatggtttgatcaatttagtgatttttttcttttctggaaaagcagAATATAGTACATCTGGATATTAAGCCAGATAATCTGTTGATTACTTGTCATGGTACAGTAAAGATAGGGGATTTCAGTGTCAGCCAGGCTTTTGAG
gtttgat putative branch site (score: 5)
tttttttcttttctg putative PPT
aatttagtgatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgacatatcatttatgttagatgctcatactcttatttatgaatgtgctttaaaatggtttgatcaatttagtgatttttttcttttctggaaaagcagAATATAGTACATCTGGATATTAAGCCAGATAATCTGTTGATTACTTGTCATGGTACAGTAAAGATAGGGGATTTCAGTGTCAGCCAGGCTTTTGAG
- - catatca
- - - - - - - - - - - - - catactc
- - - - - - - - - - - - - - - - - - - - -gaatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtttg