Sequence
atgc intronic sequence ATGC exonic sequenceTTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt...
Basic information
species | Glycine max |
transcript | GLYMA13G20980.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G20980.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os02g57660.1 (Oryza sativa), 5'ss of exon 2
TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgacttt----ttgtacactcttgt--atctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt
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GCCAGAAGAAAATTGTTAGGGAGACAAAAAAGCCAGGAGAGACAATAATTAAGGGTCACAGAAGCTATGATCTTATGCTCAGTCTACAGCTTGGAATCAGgtaatccctctgagttcggcatcgtagttgcaagatttgaatgacatctgttcgttaatttctttggtcccacta-atactgtcctgacctactctcttct-----
upper sequence: GLYMA13G20980.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G076392_T01 (Zea mays), 5'ss of exon 2
TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt----
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GCCAGAAGAAAATAGTGAAGGACATAAAGAAACCTGGGCAGACAATAATTAAAGGACATAGGAGTTATGATCTGATGCTCAGTCTGCAGCTTGGAATCAGgtaatgaatacaa--tgagacaccaggaggaactgatat--ttgaatgtcttcactttctatttcgctccttatcaatgttctccattatatgttgttaaatgc
upper sequence: GLYMA13G20980.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G09920.1 (Arabidopsis thaliana), 5'ss of exon 1
TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagt-tgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt----
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AACACAAAAGACTTGTTAAAGAAGCTAAGAAGCCTGGAGAAGTTGTTATTAAAGGTCACCGGAGTTATGATCTGATGCTCAGTTTGCAGCTTGGAATCAGgta--------tgctt--gctccttctaaacctgtgccctgtgagcgtgtttagctctaaattcatcaccgaatattgttgttactgaactagttcaaacgttag
upper sequence: GLYMA13G20980.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv08s0007g04700.t01 (Vitis vinifera), 5'ss of exon 1
TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt--
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GGCAGAAGAAACTTACAAAGGATGTAAAGAGGCCAGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTAATGCTCAGTTTGCAGCTTGGAATACGgtatact-cactgtttcttctctggttatgttcctgta-ctgagataattatattttcctaatttaatacatcttcttatcttttcttatttgttgcatctt
upper sequence: GLYMA13G20980.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ34272 (Selaginella moellendorffii), 5'ss of exon 1
TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt
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GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtacca---tctatcctgaggtttcagagttttaatcgtgtttgtacgtcgtgttcag------------------------------------------
upper sequence: GLYMA13G20980.1 (Glycine max), 5'ss of exon 2
lower sequence: EFJ31327 (Selaginella moellendorffii), 5'ss of exon 1
TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt
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GTTATAAGAAGCATGTGAAAGAGATTAAAAGGCCAGGAGAAACAATTATCAAAGGACACAGGAGCTATGATCTTATGCTGAATTTGCAGCTGGGAATAAGgtacca---tctatcctgaagtttcagagttttaatcgtgtttgtacgtcgtgttcag------------------------------------------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|208106375|gb|GD906444.1|GD906444EST: AGTTTACAGCTTGGAATAAG GTATACTGTGGGAAAGATTACACCAATACAGAGACGAGAAGTTCGAGCATC
genomic: AGTTTACAGCTTGGAATAAGgtaaaagaca ... aaatggctagGTATACTGTGGGAAAGATTACACCAATACAGAGACGAGAAGTTCGAGCATC
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCAAAAAAAAATTGCCAAAGAAATTAAAAGACCCGGTGAAGCAATCATTAAAGGTCACAGGAGCTATGATCTGATGCTTAGTTTACAGCTTGGAATAAGgtaaaagacactaccttgactttttgtacactcttgtatctttagttgttatcctttgtaacaatgctacatgacttttctttctgcaatatgctgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT