Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA
Basic information
species | Glycine max |
transcript | GLYMA09G39750.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G035098_T01 (Zea mays), 3'ss of exon 5
gtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA
| |||| | || ||||| | ||| || | | ||| | || | |||| | | || || || ||| | || | | ||||||||||| ||||||||||| || | ||| || || |||||||||||||| |||||||| |||||||| || |||||
------actgagtttgagatgctccttgacctgctagtta-------gagatctttattttcctaattaagtataattatgaacatgat--caaattaa------------tcttatctatgggcagGCAAATGTCTATCATGCAACAAAGACGGATGGCCAGGAGCTTGCAATTAAAGTCTACAAAACCTCTGTTCTTGTTTTTAA
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G24990.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA
| | | || || | | | | ||||| | ||| | || | | ||| | | || || || | | || | || || | | ||||| |||||||||||||| || |||||||| | ||||||||||| ||||| ||||| |||||||||||||| |||||
---------------gtatgtcacattcac-tactctcatatttgatggtttagctatttag----tcaagaagatgatctgtttggattcctttgttgaaagtact-ctcttttattgtttttcagGCTAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTTAA
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G37350.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatg-atgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttg-ttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA
|||||| || || | || | || ||| || | | | || || |||| || || ||| |||||||||||||||||||| || |||||||| | ||||||||||| ||||| ||||| |||||||||||||| || ||
----------------------------------------gtatgatacatttcacaactctcatatttgagattatctgtttttattcttttttgttgaaagcactctctttaattattgtctttcagGCAAATGTTTATCATGCCACAAAATCTGACGGTTCGGAACTTGCAATAAAAGTGTACAAGACATCTGTTCTGGTTTTCAA
upper sequence: GLYMA09G39750.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g01390.t01 (Vitis vinifera), 3'ss of exon 3
------------------------gtatgtgatacact-tga-agcttttgtttacctgtttgttt---ttatgatgatgacatggtttggatcatcg-actatatgtgat-atcaagacaccacatttccgtttcttact-ttgttgtt-----ttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA
| | | || | | ||| |||| | | ||| | || || || ||||| | | || || || | | | | ||| | |||| | | || || || | | | || ||||| || ||||||||||||||||||||||| || ||||| ||| ||| ||||||||||||||||| |||||||| |||||||| ||||||||
gtacgtggatccttacatccttcaatttattatctattatgatagctatagcctaca-gcatgcttcaattttgatgtttatgaagtctgcatttgtgtattttctgtcctgatcatgtgatcattttctttgttttcattattattgttattttttttaacagGCAAATGTTTATCATGCCACAAAATCCGATGGTCACGAACTTGCAATTAAAGTGTACAAAACTTCTGTTCTAGTATTTAAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|208165133|gb|GD965809.1|GD965809EST: ACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAA GCAAATGTTTATCATGCAACTAAATCTGA
genomic: ACAGAGGTGTCTTTCATGATATCAATGGATGCATTTCAACTGGAAAGGAAgtatgtgata ... tttctaacagGCAAATGTTTATCATGCAACTAAATCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA
ttcttac putative branch site (score: 2)
tttccgtttcttactt CT-rich tract
ttttctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgatacacttgaagcttttgtttacctgtttgtttttatgatgatgacatggtttggatcatcgactatatgtgatatcaagacaccacatttccgtttcttactttgttgttttctaacagGCAAATGTTTATCATGCAACTAAATCTGATACTCAAGAACTTGCAATTAAAGTATACAAAACATCTGTTCTGGTATTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC