Sequence
atgc intronic sequence ATGC exonic sequence...gataaatctgttaactgattaaaagggtagggacttgttgtataggattctttatggctcacagtattttgatcattaaataatataatatgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
Basic information
species | Glycine max |
transcript | GLYMA06G13290.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13290.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os03g50850.1 (Oryza sativa), 3'ss of exon 10
---------gataaatctgttaactgattaaaagggtagggacttgttgtataggattctttatggctcacagtattttgatcattaaataatataatatgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
| | | | | | | | || | || ||| |||| | || | | ||| ||| || || || | || | | | ||||||||| || ||||||||||| || ||| |||| || |||||||| ||||||| || || ||||| || || ||||||||||| || |||||||| ||||
agcttcagcattggtggcatcattttcccatacagttctagatat-ttacatatgattttaaattgttaaca-tatcttaattgcta-------tgatttttttgtcagGAATTCAAATGTGAGATATGTGGAAACCACAGCTACTGGGGGCGACGGGCTTATGAGCGGCATTTCAAGGAGTGGCGCCATCAGCACGGGATGCGCTGTC
upper sequence: GLYMA06G13290.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G178227_T01 (Zea mays), 3'ss of exon 10
-------gataaatctgttaactgattaaaagggtagggacttgttgtataggattctttatggctcacagtattttgatcattaaataatataatatgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
|| || | || | | ||| | | | | | | | ||| || || |||| | ||| | | || | |||||||||| |||||||||||||| || ||| | || ||||||||||| |||||| || || ||||| || |||||||| ||||| ||||||||||| || |
accagaaaatcaaggcacctttttcttttatgcttagtaagctctagca-aatttgttttctgatgcat----ttttaactgtta--tggacttatgctttgttcagGAATTCAAGTGTGAGATATGTGGAAACCATAGCTATTGGGGGCGAAGGGCTTATGAGCGTCATTTCAAGGAATGGCGTCATCAGCATGGGATGCGATGCC
upper sequence: GLYMA06G13290.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G06160.1 (Arabidopsis thaliana), 3'ss of exon 9
gataaatctgttaactgattaaaagggtagggacttgttgtataggattctttatggctcacagtatttt-gat---cattaaataatataatatgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
||| | | || | ||| || || || ||| || | | ||| |||||||| | ||| || ||||| ||||| || |||||||| |||||||| || |||||||| | ||||||| || ||||||||||||||||||| || ||||| || ||||| || |
--------------------------gtatgtagtttatttatgagaccattgttgtatcaaaggaacatagattcacattaaatttcttgttat-tacg-cagGAGTTTAAATGCGAGATATGTGGGAACTATAGCTATTGGGGAAGAAGGGCTTTTGAGAGACATTTTAAAGAATGGCGACACCAACACGGAATGCGTTGCC
upper sequence: GLYMA06G13290.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv16s0098g00320.t01 (Vitis vinifera), 3'ss of exon 10
gataaatctgttaactgattaaaagggta--gggacttgttgtataggattctttatggctcacagtattttgatcattaaataatataatatgt--atttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
|| || ||||||| || | | | || || | | || || || | | | || | || || | | | | | |||||||||||| |||||||||||||| ||||| ||||||| ||||||||| ||||||| || || |||||||| |||||||||||||| ||||| ||||| || |
--gctatgtgctaactgagaaagaagccattggagtttactttggggggacaattgtgaatagc--ctctatggactttgaagactgcttttttttaatttcagGAATTCAAGTGTGAGATATGTGGGAATCACAGTTACTGGGGGCGTAGGGCTTTTGAGCGGCATTTTAAGGAATGGCGCCATCAGCATGGTATGCGTTGCC
upper sequence: GLYMA06G13290.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S218_51V6.1 (Physcomitrella patens), 3'ss of exon 10
gataaatctgttaactgattaaaagggtagggact-tgttgtataggattctttatggctcacagta-ttttgatcattaaataatataatatgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
||| | || | | ||| | | | | || || ||||| | | | | | | |||| | | | | | || |||||||| ||||| |||||||||||||| || || || |||||||| || |||||||| |||||||| || || |||||| | ||||| ||||| ||||| |||
--taagacgcttggccgtagaaatgaatttcggttctgcagtgtaggaccatctcttttttctcgcagctttgcacctggattgacgagtgataattttcagGAGTTTAAATGTGAGATATGCGGCAATTATAGCTATTGGGGTCGACGGGCTTTTGAACGACACTTCAAGGAATGGAGACATCAGCATGGAATGCGTTGTTMapped 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|208178101|gb|GD978726.1|GD978726EST: ATGGGAAGCCTATACCTTACTGGCTGTATAAGCTACATGGTCTGGGTCAG GAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGAC
genomic: ATGGGAAGCCTATACCTTACTGGCTGTATAAGCTACATGGTCTGGGTCAGgtattatata ... tgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGG-C
EST:
gi|192304679|gb|FG994957.1|FG994957EST: ATGGGAAGCCTATACCTTACTGGCTGTATAAGCTACATGGTCTGGGTCAG GAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCT
genomic: ATGGGAAGCCTATACCTTACTGGCTGTATAAGCTACATGGTCTGGGTCAGgtattatata ... tgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattctttatggctcacagtattttgatcattaaataatataatatgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
acagtattttgatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gataaatctgttaactgattaaaagggtagggacttgttgtataggattctttatggctcacagtattttgatcattaaataatataatatgtatttcagGAATTTAAGTGTGAGATATGCGGGAACTACAGTTATTGGGGGCGTCGGGCTTTCGAACGACATTTTAAAGAATGGCGCCATCAACATGGGATGCGGTGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - gggtagg
- - - - - - - - - - - - - - - - -cttgttg