Sequence
atgc intronic sequence ATGC exonic sequence...gaatataattgctgtgatagttaaattccttgcatgtatgtatatactgtattatgaacttgagttgaagaacataataatgctcattgcaattgtgcagACAGCAGACCCAAGCTGGTGGCAGGGTCGGCTGAAGGTTATTCTGGACATGTTGATGGGAAGCTTAGGGAGGCTAGGATGAACCATCCAAAGGGGATAAC
Basic information
species | Glycine max |
transcript | GLYMA18G18550.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G075260_T01 (Zea mays), 3'ss of exon 3
gaatataattgctgtgatagttaaattccttgcatgtat--gtatatactgtattat-gaacttgagttgaagaacataataatgctcattgcaattgtgcagACAGCAGACCCAAGCTGGTGGCAGGGTCGGCTGAAGGTTATTCTGGACATGTTGATGGGAAGCTTAGGGAGGCTAGGATGAACCATCCAAAGGGGATAAC
||| ||| | | ||| | || ||| | | | || || | | | || || || | || | | || | || |||||| ||||| || ||||| || || || || | ||||| | | |||| ||||||||||||||||| | ||||| |||||||||||||||||||| | ||
--ctatcattttttt-atacctgtccatgtttcattcaccagcagatgcttttgagtcgcacaagatttatctcatctactgaaactgtgttgaacaatgcagATAGCAGGCCAAAGCTTGTTGCTGGTTCTCCAGAAGGATTTCCTGGTCATGTTGATGGGAAGCTGCGAGAGGCGAGGATGAACCATCCAAAGGGATTTAC
upper sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G125455_T03 (Zea mays), 3'ss of exon 3
--gaatataattgctgtgatagt-taaattccttgcatgtatgtatatactgtattatgaacttgagttgaagaacataataatgctcattgcaattgtgcagACAGCAGACCCAAGCTGGTGGCAGGGTCGGCTGAAGGTTATTCTGGACATGTTGATGGGAAGCTTAGGGAGGCTAGGATGAACCATCCAAAGGGGATAAC
| || || || | || | | | ||| | | | || || || | | || || | | | || || |||||| ||||| || ||||| || || || || | ||||| | | |||| ||||||||||||||||| | ||||| |||||||||||||| ||||| | ||
ttctacatcttttctatcatgttctctctctctttccagcagata-attttgagccacataa--gatttatctcattccttgaaactgggctgaacaatgcagATAGCAGGCCAAAGCTTGTTGCCGGTTCTCCCGAAGGATTTCCTGGTCATGTTGATGGGAAGCTGCGAGAGGCGAGGATGAACCATCCGAAGGGATTTAC
upper sequence: GLYMA18G18550.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0026g00330.t01 (Vitis vinifera), 3'ss of exon 3
gaatataattgctg-tgatagttaaattccttgcatgtatgtatatactgtattatgaacttgagttgaagaacat-----aataatgctcattgcaa-ttgtgcagACAGCAGACCCAAGCTGGTGGCAGGGTCGGCTGAAGGTTATTCTGGACATGTTGATGGGAAGCTTAGGGAGGCTAGGATGAACCATCCAAAGGGGATAAC
||||| | | |||| | | | || | | | | ||| || ||| || | | |||||| |||| || || | |||||| | |||||| |||||||| | || || |||||||| || ||||||||||| ||||||| ||| || ||||| |||||||| ||||| |||||| | ||
-------tatgctgattaaagttcattctcatgttattgttttggtctcttataatttttttgtgtatatttgtttcttgaaataattctcactggaaatcatgcagATACCAGACCAAAGCTGGTCACTGGATCCGCTGAAGGATACTCTGGACATGTAGATGGGAGGCTCAGAGAGGCAAGGATGAATCATCCGAAGGGGCTTAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtattatgaacttgagttgaagaacataataatgctcattgcaattgtgcagACAGCAGACCCAAGCTGGTGGCAGGGTCGGCTGAAGGTTATTCTGGACATGTTGATGGGAAGCTTAGGGAGGCTAGGATGAACCATCCAAAGGGGATAAC
aagaacataataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatataattgctgtgatagttaaattccttgcatgtatgtatatactgtattatgaacttgagttgaagaacataataatgctcattgcaattgtgcagACAGCAGACCCAAGCTGGTGGCAGGGTCGGCTGAAGGTTATTCTGGACATGTTGATGGGAAGCTTAGGGAGGCTAGGATGAACCATCCAAAGGGGATAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - ttgctgt
- - - - - - - - - - - - - -ccttgca
- - - - - - - - - - - - - - - - - tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - tatgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgctc