Sequence
atgc intronic sequence ATGC exonic sequence...catagtttgctattattcattaggtgcttaccactgtggtactgctgctgtgtgagtgttacattgaaacttgattctgtggtgatccttacctatgcagTGATCATGTTCCTAATCTCTTGGTCATTCACCGTGGTGTCTTTGCTCCTTGCAAGCCTCATATATAAGTACGTGAGCATTAAAGGAAAGGCTGGGGACTG
Basic information
species | Glycine max |
transcript | GLYMA15G22520.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G22520.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G113276_T01 (Zea mays), 3'ss of exon 6
catagtttgctattattcattaggtgcttaccactgtggtactgctgctgtgtgagtgtt-acattgaaacttgattctgtggtgatccttacctatg-cagTGATCATGTTCCTAATCTCTTGGTCATTCACCGTGGTGTCTTTGCTCCTTGCAAGCCTCATATATAAGTACGTGAGCATTAAAGGAAAGGCTGGGGACTG
|| ||| || || | | | | | | | || || || || | | | | | || | || | || | || ||||||| ||||| || ||||| ||||| ||||| || || || | ||||||||||||||| ||| | || |||||||| ||||| |||||||| |||||
tattatttatcatgttttacaa--tagcaaatatctaactgaaacagccatgaaagcatttataattataagtgttgacatgaatctttgtatcaatttcagTGATTATGTTTCTGATCTCCTGGTCTTTCACTGTTGTCTCCCTTGCCCTTGCAAGCCTCATCTATTACTATGTGAGCATAAAAGGGAAGGCTGGAGACTG
upper sequence: GLYMA15G22520.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G30450.3 (Arabidopsis thaliana), 3'ss of exon 11
-------------------------------------------------------------------------catagtttgctattattcattaggtgcttacc--actgtggtactgc----tgctgtgtgagtgttacattgaaacttgattctgtggtgatccttacctatgcagTGATCATGTTCCTAATCTCTTGGTCATTCACCGTGGTGTCTTTGCTCCTTGCAAGCCTCATATATAAGTACGTGAGCATTAAAGGAAAGGCTGGGGACTG
| |||| | || | | | |||| | || | ||| | | | | | |||| || | | | | | || |||||||||||||||| | || |||||||||||||| ||||| | | |||||||| || ||||| || ||||| || | ||||||||||||||||||||
gtatgaaattttcaaatactcacggagaaagtgtctttcccagtctacctatgtagtccattcctatagaaattctgatttga-actaccacgtggcttcttatctcacctgaatcctgagatgtcttattacaaagccttgttgagtttttaaattattattttttctattcttgcagTGATCATGTTCTTGATATCTTGGTCATTCACTGTGGTTGCCATTGCACTTGCAAGTCTTATATACAAATACGTTGGCCTAAAAGGAAAGGCTGGGGACTG
upper sequence: GLYMA15G22520.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv10s0003g04530.t01 (Vitis vinifera), 3'ss of exon 11
catagtttgctattattcattaggtgcttaccactgtggtactgctgctgtgtgagtgttacattgaaacttgattctgtgg-tgatccttac---ctatgcagTGATCATGTTCCTAATCTCTTGGTCATTCACCGTGGTGTCTTTGCTCCTTGCAAGCCTCATATATAAGTACGTGAGCATTAAAGGAAAGGCTGGGGACTG
| | | | | | |||| | ||| |||| | || || | || || | ||| | || | ||| | |||||||||||||||| | || ||||||||||| || |||||||| | ||||||||| ||||||||| | || || |||| ||||| ||||||||||||||
--tggatggtcgtgtacgtgcatgtgcatgtg--tgtattactccacatgcatgtatttttttttaggatcatatttaacagctgcttcttgtgttttgtgcagTGATCATGTTCTTGATATCTTGGTCATTTACTGTGGTGTCCCTAGCCCTTGCAAGTCTCATATATTATTATGTATGCATCAAAGGGAAGGCTGGGGACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctgtgtgagtgttacattgaaacttgattctgtggtgatccttacctatgcagTGATCATGTTCCTAATCTCTTGGTCATTCACCGTGGTGTCTTTGCTCCTTGCAAGCCTCATATATAAGTACGTGAGCATTAAAGGAAAGGCTGGGGACTG
tccttac putative branch site (score: 2)
tccttacct CT-rich tract
ttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catagtttgctattattcattaggtgcttaccactgtggtactgctgctgtgtgagtgttacattgaaacttgattctgtggtgatccttacctatgcagTGATCATGTTCCTAATCTCTTGGTCATTCACCGTGGTGTCTTTGCTCCTTGCAAGCCTCATATATAAGTACGTGAGCATTAAAGGAAAGGCTGGGGACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - -tgctatt
- - - - - - - - - - - ggtgctt
- - - - - - - - - - - - - - -accactg
- - - - - - - - - - - - - - - - - - - - -ctgctgc
- - - - - - - - - - - - - - - - - - - - - - - - tgtgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtggtg