Sequence
atgc intronic sequence ATGC exonic sequenceTGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagttcatttaaccttattttaattacgatattactttttatatgatctcttactgttcttatttgatttcag
Basic information
species | Glycine max |
transcript | GLYMA11G03590.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G03590.1 (Glycine max), 5'ss of exon 13
lower sequence: LOC_Os02g01490.1 (Oryza sativa), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagt---tcatttaaccttattttaattacgatattact-ttttatatgatctcttactgttcttatttgatttcag----------------
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TGCTTGGTAATTCTCAATATATCCTGCTACCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGCGGAAGTGGGAAGGGTTGCTGATTCTTTGAGgtatgttgttgatttgtgcatggccagcaaatgatttcaatgctatacctaaactcctgct-ttcacattatgacccatttgaatctccttaaag
upper sequence: GLYMA11G03590.1 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM2G163277_T01 (Zea mays), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagttcatttaaccttattttaattacgatattac---tttttatatgatctcttactgttcttatttgatttcag--------------------
|| |||| || ||||||| || | | || ||||||||||||||||| |||||||||| ||||| | |||||||||||||||| | || || |||| ||| ||| || | | | ||| | | || || | || | || |||| | | |||| |||
TGCTTGGTAATTCTCAGTATATCCTACTACCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTTGAAGTGGGGAAGGTTTCTGATTCTTTGAGgtaggttg--ttggcttgttcataacaagcaaatgacacgtgctttccctagcttgtacttgtacattgtgata-cagttgaatataaacttctctag
upper sequence: GLYMA11G03590.1 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM2G107218_T01 (Zea mays), 5'ss of exon 3
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagttcatttaaccttattttaattacgatat----tactttttatatgatctcttactgttcttatttgatttcag------------------
|| |||| || ||||| | || | | | ||||||||||||||||| |||||||||| ||||| | ||||||||||| ||| | || || |||| ||| ||| || ||| | ||| | | || | | || |||| |||| | ||| | |||
TGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAGgtaggttg--ttggcctgttcataacaagcaaatgccacaatcctttccctatcttgtact-tgtacattataaagcagttgtattaacttctctag
upper sequence: GLYMA11G03590.1 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM2G480185_T01 (Zea mays), 5'ss of exon 3
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagttcatttaaccttattttaattacgatattac----tttttatatgatctcttactgttcttatttgatttcag------------------
|| |||| || ||||| | || | | | ||||||||||||||||| |||||||||| ||||| | ||||||||||| ||| | || || |||| ||| ||| || ||| | ||| | | || || | || |||| |||| | ||| | |||
TGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAGgtacgttg--ttggcctgttcataacaagcaaatgacacaatcctttccctatcttgtact-tgtacattataacgcagttgaattaacttctctag
upper sequence: GLYMA11G03590.1 (Glycine max), 5'ss of exon 13
lower sequence: GRMZM2G429241_T01 (Zea mays), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagttcatttaaccttattttaattacgatattac----tttttatatgatctcttactgttcttatttgatttcag------------------
|| |||| || ||||| | || | | | ||||||||||||||||| |||||||||| ||||| | ||||||||||| ||| | || || |||| ||| ||| || ||| | ||| | | || || | || |||| |||| | ||| | |||
TGCTTGGTAATTCTCAATATATCCTACTATCCTTTCAGCCATATAAGCTGATATATGCATACATGCTTGTGGAAGTGGGGAAAGTTTCTGATTCTTTGAGgtaggttg--ttggcctgttcataacaagcaaatgacacgatcctttccctatcttgtact-tgtacattataacgcagttgaattaacttctctag
upper sequence: GLYMA11G03590.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv00s0229g00030.t01 (Vitis vinifera), 5'ss of exon 8
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagttcatttaaccttattttaattacgatattact---ttttatatgatctcttactgttcttatttgatttcag
|| ||||||||||||||||| | ||| |||||||||||||||||||||||||||||| ||| | ||||||| ||||| ||| |||| |||||||||||||||| | || || || | | | | |||| | | | || | ||| | | |||||
TGCTTGGAAACTCTCAGTTTGTTCTGCTACCATTTCAGCCATATAAGCTTATATATGCACACATGTTGGCTGAAGCAGGGAAAGTTTCAGAATCATTGAAgtaagttcttgtagtttttcttcttctgatgtttcatgcaattttgtgtatgcctttctaaatgttaggttaattcagMapped 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|20814956|gb|BQ299434.1|BQ299434EST: GGTTCCAGACTCATTGAA GTACTGCCAAGCACTACTGAAATCCTTGAAAACTGGCCGTGCTCCAGAAGT
genomic: GGTTCCAGACTCATTGAAgtaagttcat ... ttgatttcagGTACTGCCAAGCACTACTGAAATCCTTGAAAACTGGCCGTGCTCCAGAAGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGGTTGGAAACTCTCAGTTTACTTTGCATCCATTTCAGCCATATAAGCTTATATATGCATTTATGCTAGCTGAAGTGGGGAAGGTTCCAGACTCATTGAAgtaagttcatttaaccttattttaattacgatattactttttatatgatctcttactgttcttatttgatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG