Sequence
atgc intronic sequence ATGC exonic sequenceGGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatttaatatgatacaatacacagtttaatttcaatatccgtgtaaagttttatactattatccaattatttattaattgttcattaaaagattt...
Basic information
species | Glycine max |
transcript | GLYMA08G14040.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G67850.2 (Arabidopsis thaliana), 5'ss of exon 8
GGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatttaatatgatacaatacacagtttaatttcaatatccgtgtaaagttttatactattatccaattatttattaattgttcattaaaagattt
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GGTATGCAAAGAGGTTTTTGCACCCTGATATTGTAGCAAGATATGATTATATCTTCGTCTGGGATGAAGACCTGGGTGTCGAGCATTTTAACGCAGAAGAgtaagt-tgtaata--aacctttgcatggattctttccatttttcttgttttcatttgatctgttgt--aatcatc--ttggttatctgtttccag----
upper sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 8
lower sequence: AT3G26440.1 (Arabidopsis thaliana), 5'ss of exon 8
GGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatttaatatgatacaatacacagtttaatttcaatat-ccgtgtaaagttttatactattatccaattatttattaattgttcattaaaagattt
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GGTATGCTAAAAGGTTTCTGCATCCTGATATCATAGCACCATATGAATATATATTCATTTGGGATGAAGATCTTGGCGTTGAAAACTTCGACGCAGAAGAgtaagtactc----tgcttcttttgataatataatcagaaactgttatgaaatgttttctac-attattgcag----------------------------
upper sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G24570.1 (Arabidopsis thaliana), 5'ss of exon 7
GGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatttaatatgatacaatacacagtttaatttcaatatccgtgtaaagttttatactattatccaattatttattaattgttcattaaaagattt
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GGTATGCAAAGAGATTCTTGCACCCGGACATTGTAGCACGATACGATTATATATTCATATGGGATGAGGATCTTGGAGTTGATCACTTTAATGCAGAAGAgtgagtttctctt-----actcttctcacttccatttaaaaatt--tctaactatgtttgttgttgtag-------------------------------
upper sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 8
lower sequence: AT1G13000.1 (Arabidopsis thaliana), 5'ss of exon 8
GGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatt-taatatgatacaatacacagtttaatttcaatatccgtgtaaagttttatact-attatccaattatttattaattgttcattaaaagattt
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GGTATGCTAAAAGGTTTCTGCATCCTGACATTGTGGCACCTTATGACTATGTATTCATCTGGGATGAAGACCTCGGCCTTGAAAACTTCGATGTAGAAGAgtgcgtcttcttactcattctaacaaaacgtt---tttaaatcgccgcacgaatcctagtccagaaaatgtgaatatgtgcttctctctcttctgcag----
upper sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 5'ss of exon 4
GGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatttaatatgatacaatacacagtttaatttcaatatccgtgtaaa-gttttatactattatccaattatttattaattgttcattaaaagattt
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GGTATGCCAAAAGATTTCTGCATCCTGACATTGTGGCGCCATATGACTATATATTTATCTGGGATGAAGATCTAGGAGTTGAGCATTTTAATGCAGAAGAgtgagtgttggacataaatatcttttttatggcatttgtgtttcagtctacccaacttatgtcattttccaattccag-----------------------
upper sequence: GLYMA08G14040.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 5'ss of exon 8
GGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatttaatatgatacaatacacagtttaatttcaatatccgtgtaaa-gttttatactattatccaattatttattaattgttcattaaaagattt
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GGTATGCCAAAAGGTTTCTGCATCCTGACATTGTGGCGCCATATGACTATATATTTATCTGGGATGAAGATCTAGGAGTTGAGCATTTTAATGCAGAAGAgtgagtgttggacataaatatcttttttatggcatttgtgtttcagtctacccaacttatgtcattttccaattccag-----------------------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|193390001|gb|FK357658.1|FK357658EST: ATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGA ATACTTAAAACTGGTGAAGAAGCACGGGTTGGAGA
genomic: ATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtattt ... tcaatcacagATACTTAAAACTGGTGAAGAAGCACGGGTTGGAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTATGCCAAGCGGTTTCTGCATCCTGACATTGTGGCACCATATGACTATATTTTTATATGGGATGAAGACCTGGGTGTTGAACATTTTAATGCAGAGGAgtgagtatttaatatgatacaatacacagtttaatttcaatatccgtgtaaagttttatactattatccaattatttattaattgttcattaaaagattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA