Sequence
atgc intronic sequence ATGC exonic sequence...gtaatttaaaacctcgagtaagattttagtaataacaagacgaatgctaagtgatgattgatgattgtttcataatctgattttttgtggaccatcacagCTGTTTCCAGATCTAAACAAGGTAGTATTGCTGGATGATGATGTTGTAGTACAACATGACATATCTTCTTTATGGGAACTGGATCTTAATGGCAAAGTCA
Basic information
species | Glycine max |
transcript | GLYMA14G03110.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G03110.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G58790.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatttaaaacctcgagtaagattttagtaataacaagacgaat----gctaagtgatgatt--gatgattgtttcataatctgattttttgtggaccatcacagCTGTTTCCAGATCTAAACAAGGTAGTATTGCTGGATGATGATGTTGTAGTACAACATGACATATCTTCTTTATGGGAACTGGATCTTAATGGCAAAGTCA
|||| ||| | | ||| | | ||| | | ||| | || |||| ||||| ||||| |||||| | ||||| ||||||||||| |||||| |||| ||| ||||||||||||| |||||||| || | || |||||||||||| |||||| || || |||||
-----------------gtaaagtttctctcctctcaactcttctctgagcttaaaaaccattccatttatcatttcg-aatcttctttttgttggaccg-cgcagCTTTTTCCAGATCTCAACAAGATAGTGTTGTTGGATGATGATGTAGTAGTACAGAGCGATCTTTCGTCTTTATGGGAAACGGATCTCAACGGTAAAGTTG
upper sequence: GLYMA14G03110.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0142g00340.t01 (Vitis vinifera), 3'ss of exon 4
------------------gtaatttaaaacctcgagtaagatt-ttagtaataacaagacgaatgctaa---gtgatgattgatgattgtttcataatctgattttttgtggaccatcacagCTGTTTCCAGATCTAAACAAGGTAGTATTGCTGGATGATGATGTTGTAGTACAACATGACATATCTTCTTTATGGGAACTGGATCTTAATGGCAAAGTCA
| | || ||| | | | ||| | | | ||| | | | | ||| ||||| || || |||||| |||| |||| | || ||||||||||||||||| ||||| |||| || ||||||||||| ||||||||||||||||| |||| ||| | |||||| | ||||| ||||| |||||
gttaatacccctgactttcctaataaatttctcaactggattgattaattgggcggatattgttgcctatgcatctttagtgaagattgatttattatctgactttt-gtgggctat-gcagCTGTTTCCAGATCTTGACAAGATAGTGTTCTTGGATGATGATATTGTAGTACAACATGACTTATCATCTCTGTGGGAATTAGATCTCAATGGAAAAGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctaagtgatgattgatgattgtttcataatctgattttttgtggaccatcacagCTGTTTCCAGATCTAAACAAGGTAGTATTGCTGGATGATGATGTTGTAGTACAACATGACATATCTTCTTTATGGGAACTGGATCTTAATGGCAAAGTCA
atctgat putative branch site (score: 4)
ataatctgatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttaaaacctcgagtaagattttagtaataacaagacgaatgctaagtgatgattgatgattgtttcataatctgattttttgtggaccatcacagCTGTTTCCAGATCTAAACAAGGTAGTATTGCTGGATGATGATGTTGTAGTACAACATGACATATCTTCTTTATGGGAACTGGATCTTAATGGCAAAGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - -aacaagac
- - - - - - - - - - - - - - - - - - - - -gaatgct
- - - - - - - - - - - - - - - - - - - - - - - - - -tgatgat