Sequence
atgc intronic sequence ATGC exonic sequenceGTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataacaacacctttcaactttaagatgcagactgctgggtattttatttttatttggtgtgcttgtagatgatattttatttgatctttttgta...
Basic information
species | Glycine max |
transcript | GLYMA12G08740.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08740.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os03g05310.1 (Oryza sativa), 5'ss of exon 3
GTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataacaacacctttcaactttaagatgcagactgctgggtattttatttttatttggtgtgcttgtagatgatatttt--atttgatctttttgta------
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GTTCTCCACGGTGACCATCCAGAGGGATCTGTACTATGGCTATGATACATTGATGGAGAACGTCTCTGATCCGTCGCATATAGAATTTGCTCACCACAAGgtaatgcta----catttttta-tttgagaatg---atcagttactttaatgtactggcacgcaatgctagtcctggatattgcacatttgagatatgaggatggttt
upper sequence: GLYMA12G08740.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G339563_T01 (Zea mays), 5'ss of exon 3
GTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgta---aaaataacaacacctttcaactttaagatgcagactgctgggtattttatttttatttggtgtgcttgtagatgatattttatttgatctttttgta
|| ||||||| | || ||| | || ||||||||||||| ||||| | |||||||| ||||||||||| || || || || |||||||| ||||||||| | | | | | | | | || | || || | || || || || || | |||| ||| |||| |
CTTCTCCACGGTGACAATCCAGAGGGACTTGTTCTATGGTTATGATACGTTGATGGAGAACGTCTCTGATCCGTCCCATATAGAATTTGCTCACCACAAGgtacttggtacagtgagaaagcttagttgcttgccacac-ttaagcaccatgatagtatttttcagt-tgaaagttggtgattcgaggaaagatgttttgtt-
upper sequence: GLYMA12G08740.1 (Glycine max), 5'ss of exon 3
lower sequence: AT3G44880.1 (Arabidopsis thaliana), 5'ss of exon 3
GTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataacaacacctttcaactttaagatgcagac-tgctgggtattttatttttatttggtgtgcttgtagatgatattttatttgatctttttgta
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ATTTTCGACGGTGACAATTCAAAGGGATCTTTTCTATGGATATGATACTCTCATGGAAAATGTATCTGATCCTTCCCATATAGATTTTGCTCATCACAAGgtg---------ttgttttctttctcaaagctcccaatgtgtttgcatttccactaagggatattatcct--caggcgatgatt-acgtgttgtaaacag-
upper sequence: GLYMA12G08740.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv06s0061g00790.t01 (Vitis vinifera), 5'ss of exon 3
GTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataacaacacctttcaactttaagatg--cagactgctgggtattttatttttatttggtgtgcttgtagatgatattttatttgatctttttgta
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GTTCTCAACTGTGACAATTCAGCGAGATCTGTTTTATGGCTATGATACGCTGATGGAGAATGTGTCCGATCCTTCCCACATTGATTTTGCACATCACAAGgtaaatatttgaatataaggatattgatcgatgactaaattgttgtttgttc-atctttgccaggcggccttttcaattgggtgaggccct-tccaattaaa
upper sequence: GLYMA12G08740.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ23274 (Selaginella moellendorffii), 5'ss of exon 3
GTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataac-aacacctttcaactttaagatgcagactgctgggtattttatttttatttggtgtgcttgtagatgatattttatttgatctttttgta
||| | || || | || ||||||||||| |||||||| ||||| ||||| |||||||| || || ||||| || |||||||| || ||||||||||||||| | | | | | | |||| || |||| | | | | | |
CTTTTCGACAGTGACTATACAGCGTGATCTCTTCTATGGCTACGACACTCTTATGGAGAACGTTTCCGATCCATCACACATTGATTTCGCTCATCACAAGgtatggagatccagtatcacagttctttttgagctagacagaaagctttgcgactgaag------------------------------------------
upper sequence: GLYMA12G08740.1 (Glycine max), 5'ss of exon 3
lower sequence: EFJ20275 (Selaginella moellendorffii), 5'ss of exon 3
GTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataac-aacacctttcaactttaagatgcagactgctgggtattttatttttatttggtgtgcttgtagatgatattttatttgatctttttgta
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CTTTTCGACAGTGACTATACAGCGTGATCTCTTCTATGGCTACGACACACTTATGGAGAACGTTTCCGATCCATCACACATTGATTTCGCTCATCACAAGgtatggagatccagtatcacagttctttttgagctagacagaaagctttgcgactgaag------------------------------------------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|11412088|gb|BF424099.1|BF424099EST: TCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAC GTCACAGGAAGGAGAGACAGAGCCATGCCTCTGCCATACAAGATCGATTCT
genomic: TCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataa ... cactctacagGTCACAGGAAGGAGAGACAGAGCCAAGCCTCTGCCATTCAAGATGGATTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTTGCCACGGTCAACATTCAGCGTGATCTGTTCTATGGTTACGATACTCTCATGGAGAATGTCTCTGATCCTTCTCACATTGAGTTTGCTCATCACAAGgtaaaaataacaacacctttcaactttaagatgcagactgctgggtattttatttttatttggtgtgcttgtagatgatattttatttgatctttttgta
- - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA