Sequence
atgc intronic sequence ATGC exonic sequenceTGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcattgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgtaccgatcaatcaattgattatccc...
Basic information
species | Glycine max |
transcript | GLYMA15G07330.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g35470.4 (Oryza sativa), 5'ss of exon 3
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcattgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgtaccgatcaatc-aattgattatccc---------
||| ||||| ||||| || |||||||| ||| ||||||| |||||||||||||||||||| ||||||||||||||||| || ||| || |||| | | || | | ||||| ||| || | ||||| ||| | |||||||| |||| |||||
TGTCATTGTGGAAGCTCTTAAGGTGGATAGTTTGCAGAAGCTTTGTTCATCACTGGAGCCAATTCTTCGTAGAGTTgtgagtaaaagaa-ctcatagcattggatgttagacatttctttt-ctatagagatcat---acattatttctt-tgttgatcaatctaattcattatattctggaatag
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g08120.1 (Oryza sativa), 5'ss of exon 3
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaaga--aaattaagttcattgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgtaccgatcaatcaattgattatccc-------------------------------------------------------------------------------
||| ||||||||||| | |||||||| |||||||||| ||||| ||||||||||| || |||||||||||||| |||||| ||| || | || | ||| || | || || | | ||| || || | | || | | || ||
TGTTATTGTTGAAGCATTAAAGGTGGATAGTCTGCAGAGGCTTTGCTCATCACTGGAACCAATTCTTCGTAGAGTGgtaagaacaaagcaattctcttttaagcggaattctattatcatgtcgctttactctctttttttttgcataggtttattctagcatgctactgtctacatttatatgttccttcactactgttaattatttcttgcacttagttacattcggttatatatattctctgtatacatactag
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os04g36660.1 (Oryza sativa), 5'ss of exon 3
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcattgtggtattgatttgcttctgggaggactatattgatt-atttgaa-attatcacttgtaccgatcaatca-attgattatccc-
||| ||||| |||||||| || || |||||| | || || |||||||||||||| ||||| ||||| || |||||||| || | || || || | ||| |||| ||| | | |||| | || || | ||| | ||| || ||| |||
TGTCATTGTAGAAGCCCTCAAAGTAGACAGTTTACAAAAGCTTTGTTCATCACTTGAGCCGATTCTGCGAAGAGTTgtgagttgaaaaatatccttttattatc----tgctg-tggaacctttttatttacccatatggctgctttcatgattgatcgtcacccatatttgctatgtag
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G113453_T01 (Zea mays), 5'ss of exon 3
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaag--aaaattaagttcattgtggtattgatttgcttctgggaggactatattgattatttgaaattat-cacttgtaccgatcaatcaattgattatccc--
||| ||||| ||||| || ||| |||||||| |||||||||| |||||||| || ||||||||||| || |||||||| || ||| || ||| | | || ||| | | |||| || || | |||| ||| ||| | | | ||| || ||||
TGTCATTGTGGAAGCTCTCAAGATGGACAGTTTGCAGAAACTCTGTTCATCGCTTGAGCCTATTCTCCGAAGAGTTgtgagtcaaatttctgtttgacttatttttagtttatatgtaaattctgtatagtgtatacacaactttattcacatgtttgattgattttatttatgatcctag
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G451882_T01 (Zea mays), 5'ss of exon 3
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcattgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgtaccgatcaatcaattgattatccc
||| ||||||||||| | ||| |||| |||||||||| || || ||||||||||| || |||||||||||||| ||||||| |||| ||| | | ||| || | | | | || ||| || | | |||| | | | | | |||||
TGTTATTGTTGAAGCTTTAAAGATGGATAGTCTGCAGAGGCTCTGCTCATCACTGGAACCAATTCTTCGTAGAGTAgtaagaacatta-------tgtagaaactattca--tcaagcacaaatgcatc-attccttttggctctgactt-tgttctttatttacttgatag----
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G018837_T04 (Zea mays), 5'ss of exon 3
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcattgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgtaccgatcaatcaattgattatccc
||| ||||||||||| | |||||||| |||||||||| || || |||||| |||| || |||||||||||||| ||||||| || | ||| | | ||| || | | | || ||| || | | | | ||| | | |||||
TGTTATTGTTGAAGCGTTAAAGGTGGATAGTCTGCAGAGGCTCTGCTCATCATTGGAACCAATTCTTCGTAGAGTAgtaagaacatca-------tgtagaaactattca--tcaagcacatatgcatccattcctttatttggctgactttggtcttcatttacttgatag----
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv00s0181g00220.t01 (Vitis vinifera), 5'ss of exon 2
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcat-tgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgt--accgatcaatcaattgattatccc
|||||| |||||||| ||||||||||| ||||||||||||||||| |||||| |||| ||||||||||| |||||||||||| || ||| || | | ||| || || ||||| || || | || ||| | | | |||| | | | | | | ||
TGTAATAGTTGAAGCTCTGAAGGTGGATAGTCTGCAGAAACTTTGCTCATCATTGGAACCTATTCTTCGGAGAGTTgtaagataaataacctcttatatggatttctttactttctgtgaagaatttag-gataacagccttctgttttttgtttgttgttttttttttgggtaatt--
upper sequence: GLYMA15G07330.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv00s0181g00220.t01 (Vitis vinifera), 5'ss of exon 4
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcat-tgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgt--accgatcaatcaattgattatccc
|||||| |||||||| ||||||||||| ||||||||||||||||| |||||| |||| ||||||||||| |||||||||||| || ||| || | | ||| || || ||||| || || | || ||| | | |||| | | | | | | ||
TGTAATAGTTGAAGCTCTGAAGGTGGATAGTCTGCAGAAACTTTGCTCATCATTGGAACCTATTCTTCGGAGAGTTgtaagataaataacctcttatatggatttctttactttctgtgaagaatttag-gatagcagccttctgttttttgtttgttgttttttttttgggtaatt--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|213605456|gb|DB966949.1|DB966949EST: ACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTT GTTAGCGAAGAAGTAGAGTGTGCTTTAGCAAAATTAGTCCCTGCCAAGCTT
genomic: ACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaat ... tgctcaacagGTTAGCGAAGAAGTAGAGTGTGCTTTAGCAAAATTAGTCCCTGCCAAGCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTAATTGTTGAAGCCCTGAAGGTGGACAGTCTGCAGAAACTTTGTTCATCACTGGAGCCTATTCTTCGTAGAGTTgtaagaaaattaagttcattgtggtattgatttgcttctgggaggactatattgattatttgaaattatcacttgtaccgatcaatcaattgattatccc
- - - - - - - - - - - - - - - CTGCAG