Sequence
atgc intronic sequence ATGC exonic sequence...atactaagcatgatttctgatttattgaaagcgtaaaacattttttttatattcctttccaatttcttagccgttattgttgtcaattttgaattttcagGAACCTGGGAGGGCAGAAGCAGATTTTGGCCGCTTTCCCGTGAAATCAGTGATAAGAAACATCTACACTCTCTTCTCTAAAAGTGAGATTCCAATAGCAG
Basic information
species | Glycine max |
transcript | GLYMA06G44980.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G44980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0059g00230.t01 (Vitis vinifera), 3'ss of exon 3
atactaagcatgatttctgatttattgaaagcgtaaaacattttttttatattcctttccaatttcttagccgttattgttgtcaattttgaattttcagGAACCTGGGAGGGCAGAAGCAGATTTTGGCCGCTTTCCCGTGAAATCAGTGATAAGAAACATCTACACTCTCTTCTCTAAAAGTGAGATTCCAATAGCAG
| ||| | || | | | || | || | ||| || || || | | | || || | | | | || ||||| || ||| | || ||||||||||||||||||||| || || ||||||||||||||||||||| ||||||| || ||||||| | | | ||||
------gttcagtttttcgccttcatcatcttctttttcagcctctt-acattgct---cacttccatgttcagtaccattaatacctgtctaattgcagGAGCCAGGGCGAGCTGAAGCAGATTTTGGCCGCTTTGATGTTAAGACAGTGATAAGAAACATCTACATGCTCTTCTGTAGAAGTGAGCTCCAAGTAGCCA
upper sequence: GLYMA06G44980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv12s0059g00220.t01 (Vitis vinifera), 3'ss of exon 4
atactaagcatgatttctgatttattgaaagcgtaaaacattttttttatattcctttccaatttcttagccgttattgttgtcaattttgaattttcagGAACCTGGGAGGGCAGAAGCAGATTTTGGCCGCTTTCCCGTGAAATCAGTGATAAGAAACATCTACACTCTCTTCTCTAAAAGTGAGATTCCAATAGCAG
| ||| | ||| | | | || | || | ||| || || || | | | ||| || | | | | || ||||| || ||| | || ||||||||||||||||||||| || || ||||||||||||||||||||| ||||||| || ||||||| | | | ||||
------gttcagtttttcgctttcatcaccttctttttcagcctctt-acattgct---cacttccatgttcattaccattaatacctgtctaattgcagGAGCCAGGGCGAGCTGAAGCAGATTTTGGCCGCTTTGATGTTAAGACAGTGATAAGAAACATCTACATGCTCTTCTGTAGAAGTGAGCTCCAAGTAGCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatattcctttccaatttcttagccgttattgttgtcaattttgaattttcagGAACCTGGGAGGGCAGAAGCAGATTTTGGCCGCTTTCCCGTGAAATCAGTGATAAGAAACATCTACACTCTCTTCTCTAAAAGTGAGATTCCAATAGCAG
ttttc CT-rich tract
tcaattttgaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atactaagcatgatttctgatttattgaaagcgtaaaacattttttttatattcctttccaatttcttagccgttattgttgtcaattttgaattttcagGAACCTGGGAGGGCAGAAGCAGATTTTGGCCGCTTTCCCGTGAAATCAGTGATAAGAAACATCTACACTCTCTTCTCTAAAAGTGAGATTCCAATAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - -gcatgat
- - - - - - - - - - - - - - - - gtaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgtc