Sequence
atgc intronic sequence ATGC exonic sequence...cttcaatgttttaaaatctatagtgcttggtcacagaacttcatagtcatgcacatgtaatttacttatatctcgtaaaaaattgttattgtttttgcagGGTAAAAGAGGTATAGAGAAACTTCCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAG
Basic information
species | Glycine max |
transcript | GLYMA13G25110.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G132060_T01 (Zea mays), 3'ss of exon 4
cttcaatgttttaaaatctatagtgcttggtcacagaacttcatagtcatgcacatgtaatttacttatatctcgtaaa---aaattgttat--tgtttttgcagGGTAAAAGAGGTATAGAGAAACTTCCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAG
| || ||| | | | | || | | || |||| || | | | || || ||| | || || | | || ||| |||| || ||||| || |||||||| ||||||| || || ||||||||||| ||||||||||| || ||||| || || || ||||||
-ctacatatttaagcacac-caatattttcttattcgtctgt-tagttataaccgttt--cttgtttgtatatagtgaatttacaatgctatcttgttgtttcagGGGAAGAGAGGTATTGAGAAACAGCCTTTCCAGCTTCCTGACTTCATTGCTGCAACTGGAATAGAAAAGATAAGACAG
upper sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 4
---------cttcaatgttttaaaatctatagtgcttggtcacagaacttcatagtcatgcacatgtaatttacttatatctcgtaaaaaattgttattgtttttgcagGGTAAAAGAGGTATAGAGAAACTTCCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAG
|| ||| | | | |||| ||| | | | ||| | | | | ||| || | ||||| || ||||||||||| || | || |||||||| | || ||||| |||||||||||||||||||| || ||||||||||| || ||||||
gatcttgcttttagatgcatctgtttttgtagtactt--ttatactgctttttctttcttttta--taagttggtggcatctcagcggggttt-----catttttgcagGGAAAGCGTGGGATAGAGAAGCAGCCATTTCATCTTCCTGATTTCATTGCTGCAACCGGAATTGAGAAGATTAGACAG
upper sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 5
lower sequence: PP1S505_13V6.1 (Physcomitrella patens), 3'ss of exon 5
cttca-atgttttaaaatctatagtgc----ttggtcacagaacttcatagtcatgcacatgtaatttacttatatctcgtaaaaaattgttattgtttttgcagGGTAAAAGAGGTATAGAGAAACTTCCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAG
| || |||| | | | | | || ||| | ||| | || || || || | | || || | | || ||| | ||| ||||| || | ||||||||||| | |||||||||||||| ||||| ||||| || || || ||||| ||||| ||||||
-tacacatgtcgcagacatcacaccacagaatttgtcctggtggaccattttgattcagatt---ttgattcgggacttgttctga-tggtgattttgttttcagGGGAAGCGTGGTATAGAGAAGCAGCCCTTTCAGCTTCCCGATTTTATTGCAGCAACTGGTATTGAAAAAATAAGACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcatgcacatgtaatttacttatatctcgtaaaaaattgttattgtttttgcagGGTAAAAGAGGTATAGAGAAACTTCCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAG
ttgttttt CT-rich tract
taatttacttatatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcaatgttttaaaatctatagtgcttggtcacagaacttcatagtcatgcacatgtaatttacttatatctcgtaaaaaattgttattgtttttgcagGGTAAAAGAGGTATAGAGAAACTTCCCTTTCAGCTTCCTGATTTCATTGCTGCCACAGGAATTGAGAAAATCAGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- -caatgtt
- - - - - - - - - - - -tgcttgg
- - - - - - - - - - - - - - - - - - - - - - - -catgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat