Sequence
atgc intronic sequence ATGC exonic sequence...caggaaaactaatttatgccatataaaactggtgtttagacaatttattatcttcgatcatgagtcttgagatacacaattattgttgttgttgttgtagAGAGCTGTGCTGGAACCTGCAATGCAAGGACGTGATATGATTGGTCGAGCTAGAACAGGAACAGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
Basic information
species | Glycine max |
transcript | GLYMA08G41510.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G22330.1 (Arabidopsis thaliana), 3'ss of exon 1
caggaaaactaatttatgccatataaaactggtgtttagacaatttattatcttc----gatcatgagtcttgagatacacaattattgttgttgttgtt----gtagAGAGCTGTGCTGGAACCTGCAATGCAAGGACGTGATATGATTGGTCGAGCTAGAACAGGAACAGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
| | | || || || |||| | || || || | | ||| | | || | | | || | | |||| ||| ||||| |||||||||||| || || ||| | || || |||||||||||||| ||||| || ||||| || || || |||||||||||||| || ||| | ||||
---gtatgtaatgttgtgagat-caaaattttaaattgttcagcttttcgtgttcccatgtttttggaagaagggtaagtgggttttaagttttgtggttttgagtagAAAGCTGTGCTGGAGCCAGCGATGGAGGGTCGAGATATGATTGGTCGTGCTAGGACTGGAACGGGAAAGACACTTGCTTTTGGGATTCCTATCATTGACA
upper sequence: GLYMA08G41510.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0142g00670.t01 (Vitis vinifera), 3'ss of exon 1
caggaaaactaatttatgccatataaaact-ggtgtttagacaatttattatcttcgatcatgagtcttgagatacacaattattgttgttgttgttgta--gAGAGCTGTGCTGGAACCTGCAATGCAAGGACGTGATATGATTGGTCGAGCTAGAACAGGAACAGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
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---tcatgttaattgttcacatttatttcttgatatgtcagtaactcaatattcggttttggagattccatttttcgtaaaaaaaaatttgtacattgtacagAGAGCTGTGCTGGAACCTGCAATGCAAGGGCGTGACATGATCGGTCGTGCTAGAACAGGGACTGGGAAAACCCTTGCTTTTGGGATTCCCATCATGGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattatcttcgatcatgagtcttgagatacacaattattgttgttgttgttgtagAGAGCTGTGCTGGAACCTGCAATGCAAGGACGTGATATGATTGGTCGAGCTAGAACAGGAACAGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
aattattgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caggaaaactaatttatgccatataaaactggtgtttagacaatttattatcttcgatcatgagtcttgagatacacaattattgttgttgttgttgtagAGAGCTGTGCTGGAACCTGCAATGCAAGGACGTGATATGATTGGTCGAGCTAGAACAGGAACAGGGAAAACTCTTGCTTTTGGGATACCCATCTTGGACA
- ggaaaac
- - - - - - - tatgcca
- - - - - - - - - - - - - -actggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtt