Sequence
atgc intronic sequence ATGC exonic sequence...aagatgttttttcctaaatacatttagcacttatatagcaattgtaacttctcttatttatgctgaatgtatttatgtttgcattatgtgcattgaacagCTTTTCCCAAACCTTGACAAGGTGGTTTTTCTGGATGATGATGTTGTGGTTCAACGTGACTTGTCTCCACTCTGGGAAATTGATATGAATGGAAAAGTTA
Basic information
species | Glycine max |
transcript | GLYMA13G05950.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G05950.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G107854_T01 (Zea mays), 3'ss of exon 4
aagatgttttttcctaaatacatttagcacttatatagcaattgtaacttctcttatttatgctgaatgtatttatgtt--tgcatta--tgtgcattgaacagCTTTTCCCAAACCTTGACAAGGTGGTTTTTCTGGATGATGATGTTGTGGTTCAACGTGACTTGTCTCCACTCTGGGAAATTGATATGAATGGAAAAGTTA
|| || || || ||||| | ||| | ||||| | | | | || | || || | |||| | | |||| | | | || | ||||| || || ||||| ||||||||||||| || |||||||| |||| ||||| |||||||||||||| || |||| || || | | || || || |
-agctgcacttacc---atacagtacagctttaaagctagattgtgaaatttgtagatttttgtgcatctttttaatctgatccattcacttttctttaaccagCTCTTTCCCAACCTCAACAAGGTGGTTTTCCTCGATGATGACATTGTTGTTCAGCGTGACTTGTCTCCCCTTTGGGCTATCAATCTTGAAGGGAAGGTAA
upper sequence: GLYMA13G05950.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 4
aagatgttttttcctaaatacat-ttagcacttat-atagcaattgtaacttc--tcttatttatgctgaatgtatttatgtttgcattatgtgcattgaacagCTTTTCCCAAACCTTGACAAGGTGGTTTTTCTGGATGATGATGTTGTGGTTCAACGTGACTTGTCTCCACTCTGGGAAATTGATATGAATGGAAAAGTTA
| || || || |||| | ||| | | || ||| ||| | | | || ||| || | ||||| | | | ||| ||||||| ||||||| || |||||||| |||||||||| || | |||||||||||||| |||| ||||| | |||||||||||||||||||| | | ||||| ||||
----ttttattatttatatacctcttaagattgatgataatcattacatttctgtttttgtttttgtttgcgctatttttatgttgattgtgtgcatgtaacagCTCTTTCCAAACCTCAACAAGGTGGTCTTCTTAGATGATGATGTTGTAATTCAGCGTGATCTCTCTCCACTCTGGGAAATTGACCTTGAGGGAAAGGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttctcttatttatgctgaatgtatttatgtttgcattatgtgcattgaacagCTTTTCCCAAACCTTGACAAGGTGGTTTTTCTGGATGATGATGTTGTGGTTCAACGTGACTTGTCTCCACTCTGGGAAATTGATATGAATGGAAAAGTTA
ttgtaac putative branch site (score: 2)
aatgtatttatgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagatgttttttcctaaatacatttagcacttatatagcaattgtaacttctcttatttatgctgaatgtatttatgtttgcattatgtgcattgaacagCTTTTCCCAAACCTTGACAAGGTGGTTTTTCTGGATGATGATGTTGTGGTTCAACGTGACTTGTCTCCACTCTGGGAAATTGATATGAATGGAAAAGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatta