Sequence
atgc intronic sequence ATGC exonic sequenceGGGATACATTCCAATTGCTGCCAAAGGCCATAAAGATTCTGTTTATGCACTGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAGgtacaatatggcatttgctctgacttgtcgaggcttctttacctttgaaacattagatatggtttgtttgcgctttagtagcttgaattttatgggatgttgtctcttaccatggtttatttcttcaatttatttggggttcactag
Basic information
species | Glycine max |
transcript | GLYMA03G40440.3 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40440.4 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os12g06810.2 (Oryza sativa), 5'ss of exon 6
GGGATACATTCCAATTGCTGCCAAAGGCCATAAAGATTCTGTTTATGCACTGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAGgtacaatatggcatttgctctgacttgtcgaggcttctttacctttgaaacattagatatggtt-tgtttgcgctttagtagcttgaattttatgggatgttgtctcttaccatggtttatttcttcaatttatttggggttcactag
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TGGGTACAGTCCAATCACTGCCAAAGGTCACAAAGATTCAGTTTATGCATTGGCCATGAGTGACACAGGAAACACACTTGTCTCTGGTGGTACTGAAAAGgtattatgttcttcatctttgagaatgagtatgcaagttt-ccttggggttaggaggcaccataatgtgcgaatttctttggactgc-ttttgagagacct---ctcctgtgatatttccttatatgtacctgtttagtgtag-----
upper sequence: GLYMA03G40440.4 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G167999_T02 (Zea mays), 5'ss of exon 6
GGGATACATTCCAATTGCTGCCAAAGGCCATAAAGATTCTGTTTATGCACTGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAGgtacaatatggcatttgctctgacttgtcgaggcttctttacctttgaaacattagatatggtttgtttgcgctttagtagcttgaattttatgggatgttgtctcttaccatggtttatttcttcaatttatttggggttcactag
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TGGGTACAGTCCAATAGCTGCCAAAGGTCACAAAGATTCAGTTTACGCACTGGCGATGAATGATACAGGAACCCTTCTTCTCTCTGGTGGCACTGAGAAGgtattgca---ctcttcacgtaacataataagaatgac--attttgtgatgatta--caagactagtc--------aacagcc--agtttcagtacacattttccccta--aagacct---tttttgctttatttgaag--------
upper sequence: GLYMA03G40440.4 (Glycine max), 5'ss of exon 6
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 5'ss of exon 6
GGGATACATTCCAATTGCTGCCAAAGGCCATAAAGATTCTGTTTATGCACTGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAGgtacaatatggcatttgctctgacttgtcgaggcttctttacctttgaaacattagatatggtttgtttgcgctttagtagcttgaattttatgggatgttgtctcttaccatggtttatttcttcaatttatttggggttcactag
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TGGGTACACACCAACAATTGCGAAAGGCCATAAGGAGTCTGTGTATGCTTTGGCGATGAATGATACCGGAACGATGCTCGTTTCTGGTGGAACAGAAAAGgtat--tcgtacattc---ccaagttgcagagagt---atacctgagaacaacaacggataatttttttgggtttttgatttcttaaaacta--agttttttttatttattgcag--------------------------------
upper sequence: GLYMA03G40440.4 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0030g01350.t01 (Vitis vinifera), 5'ss of exon 6
GGGATACATTCCAATTGCTGCCAAAGGCCATAAAGATTCTGTTTATGCACTGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAGgtacaatatggcatttgctctgacttgtcgaggcttctttacctttgaaacattagatatggtttgtttgcgctttagtagcttgaattttatgggatgttgtctcttaccatggtttatttcttcaatttatttggggttcactag
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TGGATATGTGCCTGTTGCTGCCAAAGGCCACAAAGAGTCTGTGTATGCATTGGCAATGAATGATAGTGGAACCCTTCTTGTTTCTGGTGGAACTGAGAAGgtatgctatgatattta---tagtttctttat-tgtcttcatttttgaaggatc-gttaattcttccttgcatctgatttctttt--ttatataagaaatttattta----------------------------------------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|7924456|gb|AW830482.1|AW830482EST: TGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAG GTTGTGCGTGTCTGGGACACAAGATCAGGATCAAAGACTCTAAAGCTAAGA
genomic: TGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAGgtacaatatg ... ggttcactagGTTGTGCGTGTCTGGGACACAAGATCAGGATCAAAGACTCTAAAGCTAAGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGATACATTCCAATTGCTGCCAAAGGCCATAAAGATTCTGTTTATGCACTGGCTATGAATGAAAGTGGAACAATTCTTGTCTCTGGTGGCACAGAAAAGgtacaatatggcatttgctctgacttgtcgaggcttctttacctttgaaacattagatatggtttgtttgcgctttagtagcttgaattttatgggatgttgtctcttaccatggtttatttcttcaatttatttggggttcactag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG