Sequence
atgc intronic sequence ATGC exonic sequence...tatttgatgccttttacatgcatatttcactagaaatcttagctagcaaaaatctgacacaatcaatgtgtatttgtcccaactttctaaatttgtgtagGCCATTGCAAATTTGTCTGTCAATGCCAATGTGGCCAAAGCTGTTGCAGAAGAGGGTGGGATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGC
Basic information
species | Glycine max |
transcript | GLYMA09G37720.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G37720.1 (Glycine max), 3'ss of exon 2
lower sequence: AT2G44900.1 (Arabidopsis thaliana), 3'ss of exon 2
tatttgatgccttttacatgcatatttcactagaaatcttagctagcaaaaatctgacacaatcaat----gtgtatttgtcccaactttctaaat--ttgtgtagGCCATTGCAAATTTGTCTGTCAATGCCAATGTGGCCAAAGCTGTTGCAGAAGAGGGTGGGATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGC
| | ||| | | | | ||| || | || || || || | ||| || | | | | || || | || | ||||| |||||||||||||| || ||||| ||| | || || ||||||| ||||| || || || | ||||||||||||||||| | ||||||||||| |
---gttacttcttcttctttttttttttgcttgtcatttttcatactggaattttgatacttttgactgggacacactaacattgttcttttatctgattttttagGCTATTGCAAATTTGTCGGTAAATGCTAATATTGCAAAGTCTGTTGCTGAAGAAGGAGGAATCAAAATTCTTGCTGGTTTGGCAAAGTCAATGAACAGAC
upper sequence: GLYMA09G37720.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv15s0021g01810.t01 (Vitis vinifera), 3'ss of exon 2
---tatttgatgccttttacatgcatatttcactagaaatcttagctagcaaaaatctgacacaatcaatgtgtatttgtcccaactttctaaatttgtgtagGCCATTGCAAATTTGTCTGTCAATGCCAATGTGGCCAAAGCTGTTGCAGAAGAGGGTGGGATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGC
|| || | || ||| | || | || | | || || || |||| | |||||| || | | | | ||||||| ||||| || ||||| || ||||||||||| || |||||||||||||| || || || || | || ||| | ||||||||||||| ||||||| |
acaagattagtgtcattattatgaaacttgacatttttattgattttggattgaagttgtggaaaccaattta-atttgttaaaatctgttgca--tatgtagGCTATTGCCAACTTGTCGGTGAATGCCAATGTTGCAAAAGCTGTTGCAGATGAAGGAGGAATCAATATACTTTCCAGTTTGGCTAGGTCCATGAACAGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcaaaaatctgacacaatcaatgtgtatttgtcccaactttctaaatttgtgtagGCCATTGCAAATTTGTCTGTCAATGCCAATGTGGCCAAAGCTGTTGCAGAAGAGGGTGGGATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGC
ttctaaa putative branch site (score: 2)
aactttctaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttgatgccttttacatgcatatttcactagaaatcttagctagcaaaaatctgacacaatcaatgtgtatttgtcccaactttctaaatttgtgtagGCCATTGCAAATTTGTCTGTCAATGCCAATGTGGCCAAAGCTGTTGCAGAAGAGGGTGGGATTCAGATTCTTGCTGGTTTGGCTAGGTCAATGAACAAGC
- - tgatgcc
- - - - - - - -acatgca
- - - - - - - - - - - - - - - - - - - - -gctagca
- - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtg