Sequence
atgc intronic sequence ATGC exonic sequence...aaaaaaagcctagctttctaagtcttgataacactgtgaatgcatatcattgttgtttcttttacagccttgttttttggggtcatttcttgctttacagGTATCGCATCTCTCTATTTTCTCGATGGAAGCAGAGAGGAATGTATGCAATGTGCATGTGGGTTGTCCAGTTACTACTGGTTCTTAGCAATATGGATTCG
Basic information
species | Glycine max |
transcript | GLYMA04G39780.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G39780.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G22010.1 (Arabidopsis thaliana), 3'ss of exon 4
---------aaaaaaagcctagctttc--taagtcttgataa----cactgtgaatgcatatcattgttgtttctt-----------ttacagccttgttttttggggtcatttc---ttgcttta-cagGTATCGCATCTCTCTATTTTCTCGATGGAAGCAGAGAGGAATGTATGCAATGTGCATGTGGGTTGTCCAGTTACTACTGGTTCTTAGCAATATGGATTCG
| || | | | || | ||| || || ||||| | ||| | || ||| | ||||| || |||||| ||||| | ||| ||||| |||||||| | || |||||||||||||| || |||||||||||| |||||||||||||||| ||| |||| |||||||| ||||| ||||||||
gtaagtttcacttaactcatggattgcgttaactccagaaggagggtgtagtgaagaggtttcagttatgattcatgtgaggcaacattacaatctatatttttgccctcattctgaatcattttgtcagGTTCCGCATCTCATTGTTCTCTCGATGGAAGCAAAGGGGAATGTATGCATTGTGCATGTGGGTTGTACAGCTACTTCTGGTTCTCAGCAAAATGGATTCT
upper sequence: GLYMA04G39780.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0031g01490.t01 (Vitis vinifera), 3'ss of exon 4
aaaaaaagcctagctt-tctaagtcttgataacactgtgaatgcatatcattgttgtttcttttacagccttgttttttggggtcattt---cttgctttacagGTATCGCATCTCTCTATTTTCTCGATGGAAGCAGAGAGGAATGTATGCAATGTGCATGTGGGTTGTCCAGTTACTACTGGTTCTTAGCAATATGGATTCG
| || | ||| | |||| || | | ||| ||| ||| | | || | ||||| || |||||||| | || ||| |||||| ||||||||||| |||||||| |||||||| ||||||||||||||| ||||||||| ||| || || || |||||||||||||| ||||||||
tataatcacaaagcatgtctattgattcaacctgcaacttatgtatactgttgatatccacatt----ctctgtttcttttggtcattttgtcatgttttgcagGTACCGCATCTCTCTGTTTTCTCGCTGGAAGCAAAGAGGAATGTATGCAGCATGCATGTGGAGTGTTCAATTGCTTCTGGTTCTTAGCAAAATGGATTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcattgttgtttcttttacagccttgttttttggggtcatttcttgctttacagGTATCGCATCTCTCTATTTTCTCGATGGAAGCAGAGAGGAATGTATGCAATGTGCATGTGGGTTGTCCAGTTACTACTGGTTCTTAGCAATATGGATTCG
tcatttcttgcttt CT-rich tract
tttctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaaaagcctagctttctaagtcttgataacactgtgaatgcatatcattgttgtttcttttacagccttgttttttggggtcatttcttgctttacagGTATCGCATCTCTCTATTTTCTCGATGGAAGCAGAGAGGAATGTATGCAATGTGCATGTGGGTTGTCCAGTTACTACTGGTTCTTAGCAATATGGATTCG
aaaaaaa
- - - - - - - - - - - - - - - - - - -gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgggg