Sequence
atgc intronic sequence ATGC exonic sequence...ttacatgagttacacatacatatttcaataattgtattattctagtaattaataaacactgcctttaatcctactgaatgttgtcattgtaactttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATATGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
Basic information
species | Glycine max |
transcript | GLYMA19G41840.2 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 13
lower sequence: AT5G27030.2 (Arabidopsis thaliana), 3'ss of exon 12
--------------------------------------------------------------ttacatgagttacaca-tacatatttcaataattgtattattctagtaattaataaacactgcctttaatcctactgaatgttgtcattgta-actttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATATGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
|| | || | | | || | || | | || |||| | | || || ||| || | | | | || | || || | || ||||| |||||||||| ||||| ||||| ||||||||||||||| | ||||||||| ||||||| || ||||| |||||||| || ||| | |||||||| |
gtgcggcaaggattgaatcaaactatattttacatcaattattatactgttttaccaatccgtttgaagaacaataaagtagacgacacatttcatatagtattatcttgcctatgaatttctgttctttaccaaaatacatctcgttcttatttggatttcagTTCATATTTTCAACCGCCATAGATGGGAAAATAAAAGCCTGGCTTTATGATAATCTGGGTTCCAGAGTTGACTATGATGCTCCCGGTAAATGGTGTACGA
upper sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 13
--ttacatgagttacacatacatatttcaataattgtattattctagtaattaataaacactgcctttaatcctactgaatgttgtcattgtaa-ctttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATATGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
| |||| || | || ||| || || ||| | ||| || || | || || |||| || || | |||| ||||||||| ||||||||||||| || ||||| ||||| ||||||||||| ||||| || || || || || ||||| |||||||| || || | ||||| ||||
gaagatatgatttcta-attgggatt--aaggttttgtttagttgagttatagttacagacattctctaatgatatgttgctttccactcgtaaattttgcagTTCATATTTTCAACTGCTATGGATGGGAAAATTAAAGCCTGGTTGTATGACAACATTGGGTCCAGAGTTGACTATGATGCTCCTGGGCTATGGTGCACTA
upper sequence: GLYMA19G41840.2 (Glycine max), 3'ss of exon 13
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 3'ss of exon 13
ttacatgagttacacatacat-atttcaataattgtattattctagtaattaataaacactgcctt---taatcctactgaatgttgt-cattgtaactttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATATGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
| || || | || | ||| ||| | | |||| | ||| | || | ||| | |||| ||| | | |||||| |||| ||||| || || |||||||| |||||||||||| | |||||| | | |||||||| ||||| |||||||| ||||| |||||||| ||||
-----ttagccccatgtgaattaaaacaaaaatggagtaattcgtatctgaaatgtgcggtgtggtgtgtaaaacctctgacctttggatgacctcgtatgccagTTTATATTCTCAACAGCTATCGATGGCAAGATAAAAGCCTGGCTCTATGATCTTCTTGGTTCTAGAGTTGACTATGATGCACCAGGGCATTGGTGCACTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taattaataaacactgcctttaatcctactgaatgttgtcattgtaactttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATATGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
ttgtaac putative branch site (score: 2)
aataaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttacatgagttacacatacatatttcaataattgtattattctagtaattaataaacactgcctttaatcctactgaatgttgtcattgtaactttgcagTTTGTATTTTCAACTGCCATTGATGGCAAAATAAAAGCCTGGTTATATGATAATATGGGTTCTAGGGTTGATTATGATGCCCCAGGTCATTGGTGTACTA
- acatgag
- - - - - - cacatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtc