Sequence
atgc intronic sequence ATGC exonic sequencegtattgtgcttccttgcacaaatttacctttgtgaaaatatactctttttttctttaaaaatattagtttgattttgttggtcttgtgacattgaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATTTTCTGGGACAACGACAGTTTGGCTGGTCTATTGGCTTTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
Basic information
species | Glycine max |
transcript | GLYMA18G40770.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G40770.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G375504_T01 (Zea mays), 3'ss of exon 4
---------gtattgtgcttccttgc---acaaatttacctttgtgaaaatatactctttttttctttaaaaatattagtttgattttgttggtcttgtgacattgaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATTTTCTGGGACAACGACAGTTTGGCTGGTCTATTGGCTTTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
||| ||| | | | | | |||| | | ||| | | | | | | | ||| | || || | |||| | | | || | | | | || || | | |||||||| |||||||| |||||||| || |||||||| |||||||| |||||| | ||||||||||| || |||||||||||| | |||||||| || ||||
gtttgtgttgtaccatgcatgccttcttgataaatgtgatatcatgatact-catgcacctgtaccttagccaatgcag---gagtctgttaaagtctcaatagcattttgtgatgctcaccaacagttcctttttacagGATTCATCTGGTATATTCTGGGATAATGACAGTTTAGCTGGTCTTTTGGCTATTGAACTTAAAGCAGATCTCCTTGTTCTACTAAGTGATGTAGATGGTC
upper sequence: GLYMA18G40770.1 (Glycine max), 3'ss of exon 5
lower sequence: AC203754.4_FGT008 (Zea mays), 3'ss of exon 5
-------------------------------gtattgtgcttccttgcacaaatttacctttgtgaaaatatact-ctttttttctttaaa---aatattagtttgattttgttggtcttgtgaca----ttgaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATTTTCTGGGACAACGACAGTTTGGCTGGTCTATTGGCTTTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
| || ||||| || | ||||| | | || ||| | | || | || | ||| | ||||| | || | | | || | | | | | || | | |||||||||| || ||||| || ||||| || |||||||| || ||||| |||||| | ||||||||||| || || ||||||||| | ||||| || || || |
gtttgtgttgtaccatgcatgacattaaatttcaacaatatttgctgcactgcttgataaatgtgatatcgtgctacttatgcaccttgaccttaaccaatgcatgagtctgttgattttttaaaagcattttcgatgtcatactcataaacagtttgtttttgcagGATTCATCGGGTATATTTTGGGATAATGACAGTTTAGCCGGTCTTTTGGCTATAGAACTTAAAGCAGATCTTCTTGTTCTACTCAGTGACGTGGATGGCC
upper sequence: GLYMA18G40770.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g01060.t01 (Vitis vinifera), 3'ss of exon 5
gtattgtgcttccttgcacaaatttacctttgtgaaaatatactctttttttctttaaaaatattagtttgattttgttggtcttgtgacattgaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATTTTCTGGGACAACGACAGTTTGGCTGGTCTATTGGCTTTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
| || | | ||| | |||| || ||| | | |||| | || | ||| | || || ||| | | | | |||||| | ||||||||||||||||| || || || || |||||| |||| |||| ||||| ||||||| ||||||||||| ||||| | ||||||||||| |||||||
--------------------------ctattatttatttat-ttattttattatttttgcacttcagtt-gcttacttatgtcatttgccagatgtatatgttgtctgattatgaaaactgttttcagGATTCTTCTGGTATATTTTGTGATAATGACAGTCTGGCAACTCTACTGGCTCTGGAACTAAAAGCTGACCTTCTTGTCTTGTTGAGTGATGTAGAGGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttggtcttgtgacattgaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATTTTCTGGGACAACGACAGTTTGGCTGGTCTATTGGCTTTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
aattattacctttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgtgcttccttgcacaaatttacctttgtgaaaatatactctttttttctttaaaaatattagtttgattttgttggtcttgtgacattgaattattacctttaagggcaagaactgtctgcagGATTCTTCTGGTATTTTCTGGGACAACGACAGTTTGGCTGGTCTATTGGCTTTGGAACTTAAAGCTGACCTCCTTGTTCTATTGAGTGATGTTGAGGGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA