Sequence
atgc intronic sequence ATGC exonic sequence...tttttgtaaattaggctgcttgatggaattacatgcaagtaatttataacctttgcaagttttgacttattaagagcctatctgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
Basic information
species | Glycine max |
transcript | GLYMA13G29180.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 9
lower sequence: AT2G34660.1 (Arabidopsis thaliana), 3'ss of exon 9
-tttttgtaaattaggctgcttgatggaattacatgcaagtaatttataacctttgcaagttttgacttattaagagcctatc--tgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
||| || |||| | || || ||| | | ||| |||| | | ||| || || | || ||| || ||||| || |||||| ||||||||||||||||||| |||||||||||||||||||||||||| | ||||| | ||
ttttgcgtctgttagataggttc-tgactttatctagtgtagggtgata--ctttaaagctacaaactcatcgagtgactgatgttgatgacaacgtttctagGTGTTCGGGGTGCTATGTGAAGCTCAATATTTCCAGAATGTCATGCGTGTTGGTTACCGACTGAGATCTGCTCTG
upper sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 9
lower sequence: AT1G30400.1 (Arabidopsis thaliana), 3'ss of exon 10
----tttttgtaaattaggctg--cttgatggaattacatgcaagtaatttataacctttgcaagttttgacttattaagagcctatctgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
|||| | || | ||| | | || | | || | | ||| || | |||| || | ||| ||| || |||| || ||||| |||||||||||||| ||||| || ||||| |||||||||||||||||| | || || || ||
aatacatttgcatgttgaaaaggttttgtttaatgtaggtcaaggtgacacttgaccaatggactccttgatcgcttgatg------ttgatgttgacattttcagGTATTGGGGGTTTTATGTGAAGCTCAGTATTTCCAAAATGTGATGCGTGTTGGTTACCGGCTTAGGTCTGCACTG
upper sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g04390.t01 (Vitis vinifera), 3'ss of exon 9
-tttttgtaaattaggctgcttgatggaattacatgcaagtaa---tttataacct--ttgcaagttttgacttattaagagcctatctgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
| ||| | |||| | | | | ||| | | | ||| |||| ||| ||| ||| | | | || || | |||| || ||||| |||| ||||||||| ||||||||||||||||||||||| |||| |||| | |||||||| |||
gctcttg-atattactgttatgggcatgctctcattctactggatctttgtaacacaattggaagaag-aactccacactgattggtttaaactttctcc----agGTATTCGGGGTATTATTTGAAGCTCAGTATTTTCAGAATGTCATGCGTGTGGGTTTCCGGGTTAGATCAACTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataacctttgcaagttttgacttattaagagcctatctgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
tttgttttt CT-rich tract
aatttgtttttgata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttgtaaattaggctgcttgatggaattacatgcaagtaatttataacctttgcaagttttgacttattaagagcctatctgaatttgtttttgatagGTCTTTGGGGTGTTATGTGAAGCTCAATATTTTCAGAATGTCATGCGTGTTGGTTACCGGTTAAGATCAACATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - aggctgc
- - - - - - - - - -ttgatgg
- - - - - - - - - - - - - - - acatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatctg