Sequence
atgc intronic sequence ATGC exonic sequenceATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgttatgtttgaatgcatctgtagctgtacaactttttaattttactgaactgaaaattaattctctgaaattccag
Basic information
species | Glycine max |
transcript | GLYMA17G03430.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 4
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 5'ss of exon 4
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtat---gttatgtttgaatgcatctgtag---ctgtacaactttttaattttactgaactgaaaattaattctctgaaattccag-----------------------------
|||||| ||||| ||||| || ||||| || |||||||||||||| || || |||||||| ||||| ||| |||| |||||||||||||||| |||||||||| | || | | ||| | | | | | || || ||| | | | | ||| | || | |
ATCTGGCACTTCGGAGAATACAAAGGTTGTCATTGATCATGGGGCTGTACCAATATTTGTGAAGCTTCTTGGTTCTTCTAGTGATGATGTTCGTGAGCAGgtatccgatcatctcctgacttgtctttgtgctttctgtacttccttgatattattttgattgag-tgcattgttggagttattaatgtttttacctcttgaaaaaaaattgaag
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 4
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgttatgtttgaatgcatctgtagctgtacaactttttaatttt-actgaac------tgaaaattaattctctgaaattccag------------
||||| ||||| || || || ||||| || |||||||||||||| |||||||||||||| ||||| ||| | || ||||||||||||||| |||||||||| |||| | | | | ||| | | ||| || || | || | ||| | | | ||| || |
TTCTGGCACTTCAGAAAATACAAAGGTTGTTATTGATCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtat-ttatttagtcttatcttttgtgctttcttattttctatttaggagtgtatgatgtgtgacagtgccctttctctgttttaaaacaatacaaaag
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM2G088231_T01 (Zea mays), 5'ss of exon 4
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgt-tatgtttgaatgcatctgtagctgtaca---actttttaattttac-tgaactgaaaatta---attctctgaaattccag-----------
||||| ||||| || || || |||| || ||||| |||||||| |||||||||||||| ||||| ||| | || ||||||||||||||| |||||||||| | | | || | | | ||| | | || |||| | ||| ||| | | | ||| ||| || |
TTCTGGCACTTCAGAAAATACAAAGGCTGTTATTGACCATGGGGCTGTTCCTATATTTGTGAAGCTTCTTGGGTCTGGTAGTGATGATGTTCGTGAGCAGgtatttattcagtcttttggctttcttgctttttatttgctatttaggagtgtgtgatgtgacagtaatgcattttctctgttttaaaacaattaaaag
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv05s0077g01430.t01 (Vitis vinifera), 5'ss of exon 4
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgt--------tatgtttgaatgcatctgtagctgtacaactttttaat--tttactg----aactgaaaattaa----ttctctgaaattccag------------
|||||||| || || || || |||||||||||||||||||| ||||| || |||||||| ||||||||| |||| || ||||||||||||||||||||||| | | |||||||| | | || | || | | || |||| || ||| | | | | || | |||||| |
TTCTGGGACATCAGAAAATACCAAGGTGGTAATTGATCATGGAGCAGTGCCAATATTTGTGAAGCTACTTGGTTCTCCAAGTGATGATGTTCGGGAGCAGgtgcttatttgaaatttgtttgaagcccgttttaagattgcagactgtatatcatttattggcataacatagattcgaggttttatatgaaatcctttaccaaaatgtag
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 4
lower sequence: PP1S43_141V6.1 (Physcomitrella patens), 5'ss of exon 5
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgttatgtttgaatgcatc-tgtagctgtacaactttttaattttactgaactgaaaattaattct--ctgaaattccag-----------------
||| || || ||||| ||||| || || ||||| |||||||| |||||||| ||||| |||| || || || |||||||| |||||||| ||||||||||| || ||| | | | ||| |||| | || | || | || || | | | ||| |
ATCCGGAACATCTGATCACACTCGTGTTGTGATTGAGCATGGGGCTGTTCCTATCTTTGTTCAGCTTCTGAGCTCTCCTAGTGACGATGTTCGTGAGCAGgtatgaattgaatgattttgggatattactgcttaactgccaggtgttctgcatctaatggatagttttgcttcagatttctatctggtgtatcactgcaMapped 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|209724999|gb|BW659745.1|BW659745EST: CTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAG GCAGTGTGGGCTTTGGGAAATGTTGCTGGTGACTCCCCTAGGTGTAGAGAT
genomic: CTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgttatg ... gaaattccagGCAGTGTGGGCTTTGGGAAATGTTGCTGGTGACTCCCCTAGGTGTAGAGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATCTGGGACTTCTGAGAACACTAAGGTGGTAATTGATCATGGGGCAGTTCCTATATTTGTCAAGCTACTTAGTTCACCTAGTGATGATGTTCGGGAGCAGgtatgttatgtttgaatgcatctgtagctgtacaactttttaattttactgaactgaaaattaattctctgaaattccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG