Sequence
atgc intronic sequence ATGC exonic sequenceCAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgtacctaattctttaggtcagcctaatttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag
Basic information
species | Glycine max |
transcript | GLYMA20G29570.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G29570.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os09g35730.1 (Oryza sativa), 5'ss of exon 3
CAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgtacctaattctttaggtcagccta-atttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag
| || ||||||||||||| || ||||| || | |||||||| ||||| ||||||| ||||| ||||| | ||||||||||| |||||||| || || ||| | || || | | || ||||| | | | | | | || |||| |||| ||| || | | |
TAATAACTACATCTCTGTTGGAGCCTCTGGAGCTTTATTTGGACTGCTTGGATCAATGCTTTCTGAGCTTATTATGAACTGGACTATTTATTCCAACAAGgttagtaaatgagat-----agatgcacatacattttcactattcagttgcttgatgtttgttttgatcaagctaatccactcttgcag------------------------------------------------------------------------------------------------
upper sequence: GLYMA20G29570.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G07250.2 (Arabidopsis thaliana), 5'ss of exon 3
CAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgt-acctaattctttaggtcagcctaatttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag
|||| || ||||||||||| ||||||||||| |||||||| || |||||| ||||||| ||||||||| |||| |||||||| || || || || || || | | | | || | ||| | || || || | |||| | | || ||| | | | | | || || | || |||| |
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaac--atacaaatcactccat-catgttggctcatgtttctgatctgagcatatgtaccagat-tgctgcactcctg---------------------------------------------------------------------------------
upper sequence: GLYMA20G29570.1 (Glycine max), 5'ss of exon 3
lower sequence: AT5G07250.1 (Arabidopsis thaliana), 5'ss of exon 3
CAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgt-acctaattctttaggtcagcctaatttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag
|||| || ||||||||||| ||||||||||| |||||||| || |||||| ||||||| ||||||||| |||| |||||||| || || || || || || | | | | || | ||| | || || || | |||| | | || ||| | | | | | ||
CAGAAACAGTATCTCTGTTGGAGCTTCTGGTGCTCTTTTTGGCCTCCTTGGCTCAATGCTCTCTGAACTTTTCACCAACTGGACAATCTACTCTAACAAGgttaataccaatctgcttttcatttcaaac--atacaaatcactccat-catgttggctcatgtttctgatctgagcatatgtaccag-------------------------------------------------------------------------------------------------
upper sequence: GLYMA20G29570.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv16s0100g00640.t01 (Vitis vinifera), 5'ss of exon 3
CAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgtacctaattctttaggtcagcctaatttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag
| | |||||||||||| ||||||||||| |||||||| ||| | || |||||||| || || ||||| ||||||||| | || ||| | || | ||||| | ||| | | || | || | ||| | || || ||| | ||| | | | ||
TCAAAATAGCATCTCTGTTGGGGCTTCTGGTGCTCTTTTTGGGCTTTTGGGAGCAATGCTTTCAGAGCTTATTACAAACTGGTCCATGTATACAAACAGGgtgagca-atctagcccact--gttgtcttactccttac--cctttgagataattagccttgtttgttgcttttgtag----------------------------------------------------------------------------------------------------------Mapped 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|192294769|gb|FG986618.1|FG986618EST: GCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAA GCAATGGCTTTAATAACCCTTCTAGTGATCATTGTGATCAACCTTGGCATT
genomic: GCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgtac ... cttgttgtagGCAATGGCTTTAATAACCCTTCTAGTGATCATTGTGATCAACCTTGGCATT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGAGACCACATCTCTGTTGGTGCTTCTGGTGCCCTTTTTGGACTTCTTGGCGCAATGCTGTCTGAACTTATCACAAACTGGACTATATATTCCAATAAAgtgagtgtacctaattctttaggtcagcctaatttttatggctttctgcatggttattaatttttttcaatataagagacacctcaaatcttctacactttggctcattgtaatcaattagtttcatatctttaaattatattaacatggcacaagttaacttttttttttactcttgttgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG