Sequence
atgc intronic sequence ATGC exonic sequenceTATCATGGTAGCATGGACCCTGCTCAACGTGCTTCTGTTCAAAAGCAGTGGAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttacttccttgctacggcttgctgcactggttaattgaatgggatcatattttaaagttggtatttcag
Basic information
species | Glycine max |
transcript | GLYMA08G20070.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20070.1 (Glycine max), 5'ss of exon 17
lower sequence: LOC_Os04g35420.1 (Oryza sativa), 5'ss of exon 14
TATCATGGTAGCATGGACCCTGCTCAACGTGCTTCTGTTCAAAAGCAGTGGAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttacttccttgctacggcttgctgcactggttaattgaatgggatcatattttaaagttg--gtatttcag
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TATCATGGTAGCATGGATCCTGAGGATAGAGCAAATATCCAGAAACAGTGGAGCAAGGATAGGATCAACATAATATGTGCTACAGTTGCATTTGGGATGGgtaacttgattttcatagtgtgcaca--tatatttgttgttt-attggtgcctcgtgctaattgtgcaggattgcag
upper sequence: GLYMA08G20070.1 (Glycine max), 5'ss of exon 17
lower sequence: AT1G10930.1 (Arabidopsis thaliana), 5'ss of exon 15
TATCATGGTAGCATGGACCCTGCTCAACGTGCTTCTGTTCAAAAGCAGTGGAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttacttccttgctacggcttgctgcactggttaattgaatgggatcatattttaaagttg-gtatttcag
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TACCATGGCAGTATGGAGCCTGAGCAACGTGCCTTTATACAGACACAATGGAGCAAGGACGAAATCAATATAATATGTGCTACTGTGGCATTTGGAATGGgta---ctggttt-ttgctaatgttgttttaattcattga--aaatgttgctgcccattaacattgcacatttcag
upper sequence: GLYMA08G20070.1 (Glycine max), 5'ss of exon 17
lower sequence: AT1G60930.1 (Arabidopsis thaliana), 5'ss of exon 15
TATCATGGTAGCATGGACCCTGCTCAACGTGCTTCTGTTCAAAAGCAGTGGAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttacttccttgctacggcttgctgcactggttaattgaatgggatcatattttaaagttggtatttcag
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TACCATGGCAGTATGGATCCTGGTAAACGTGCCTTTGTACAGAAACAATGGAGCAAGGATGAAATCAATATAATATGTGCTACAGTGGCATTTGGAATGGgtaattaatggtctctgttatagcc----actttgattgattgaagtttgctgcctgctaacgttgatatttcag
upper sequence: GLYMA08G20070.1 (Glycine max), 5'ss of exon 17
lower sequence: Vv12s0035g00400.t01 (Vitis vinifera), 5'ss of exon 11
TATCATGGTAGCATGGACCCTGCTCAACGTGCTTCTGTTCAAAAGCAGTGGAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttacttccttgctacggcttgctgcactggttaattgaatgggatcatattttaaagttggtatttcag---------
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TATCATGGTTCCATGGATCCAGCTCGACGTGCCTTCGTTCAGAAGCAATGGAGTAAAGATGAGATTAATATAATTTGCGCAACTGTGGCTTTTGGAATGGgtatcattga----ttattactattttcctgacttggtagctgatgacaaccatgtattgacatagtcactagactcattacag
upper sequence: GLYMA08G20070.1 (Glycine max), 5'ss of exon 17
lower sequence: EFJ17581 (Selaginella moellendorffii), 5'ss of exon 8
TATCATGGTAGCATGGACCCTGCTCAACGTGCTTCTGTTCAAAAGCAGTGGAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttacttccttgcta-cggcttg--ctgcactggttaattgaatgggatcatattttaaagttggtatttcag
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TACCATGCTAGCATGGATCCACAAGAAAGGAACAGGGTGCAACGTATGTGGAGTAAGGACGAAATCAATATAATTTGTGCCACTGTGGCATTCGGCATGGgtaagcccgcataatactaaactgcgtgagcttcacaggaattttgacag----------------------------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|193549141|gb|FK505436.1|FK505436EST: GAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGG GTATTAACAAACCTGATGTCCGCTTTGTAATCC
genomic: GAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttac ... ggtatttcagGTATTAACAAACCTGATGTCCGCTTTGTAATCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATCATGGTAGCATGGACCCTGCTCAACGTGCTTCTGTTCAAAAGCAGTGGAGCAAAGATGAGATCAATATAATTTGTGCTACTGTGGCATTTGGAATGGgtatatttacttccttgctacggcttgctgcactggttaattgaatgggatcatattttaaagttggtatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA