Sequence
atgc intronic sequence ATGC exonic sequenceATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttgctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt...
Basic information
species | Glycine max |
transcript | GLYMA11G05340.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os03g10940.1 (Oryza sativa), 5'ss of exon 6
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttg----ctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt-------------------------------------
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ATATTTCGCAAGGAACCATTCTTCTATGGCCACGATAACCATGACCAGCTTGTCAAAATAGCCAAGgt-----ttgctacagttcacatagacgcatgcgcatgtgtttatgctgagcatttgcacttgtatctgtatatgtctgctctgctttctgcctgaaa-atattgcaggcattagcatattgatgaactatacctgagcag
upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv07s0129g00410.t01 (Vitis vinifera), 5'ss of exon 6
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttgctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt-----------
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ATCTTTCGCAAGGAACCATTCTTTTATGGTCATGACAATCATGATCAGCTTGTCAAGATTGCCAAGgtatgtttggcta--------aatgatct-taaaatttaaggcatagtcttttcatatcattcaaaggttctgccactttg--ccaaaacagcatgtatttcaagtactag
upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv18s0001g09320.t01 (Vitis vinifera), 5'ss of exon 6
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttata--agtgtttggttatcttgctgtcaccata-cacagtaatttcatgttttggttccagattatgatatatt-
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ATTTTTCGCAAGGAGCCATTCTTTTATGGTCATGATAATCATGACCAGCTTGTAAAAATTGCCAAGgtaatgacaatcgtgtgtttagctaaattatgttatctcctggtggtcctgttttttctttaatccagtaagca-atgccatggtt---gagtgtactcaattg
upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
lower sequence: PP1S230_93V6.1 (Physcomitrella patens), 5'ss of exon 6
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttgctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt----
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ATTTTCCGCAAGGAGCCGTTTTTCTATGGTCATGACAATTATGATCAGCTTGTCAAGATCGCTAAGgtaagttcaat----gtttagtaaaacgatcacctttgttgcagtcttgttatctttgtatgttttgaaactgtagctctagtgcggtgcatattttgcttcga
upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
lower sequence: EFJ20478 (Selaginella moellendorffii), 5'ss of exon 6
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttgctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt
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ATATTTCGCAAAGAACCATTCTTTTATGGCCATGACAATCACGATCAGCTGGTGAAGATTGCCAAGgttttaaacg-cagaatgtctgtttcttgctgtttttgacgttggcttgtggtgtttag-----------------------------------------
upper sequence: GLYMA11G05340.2 (Glycine max), 5'ss of exon 6
lower sequence: EFJ28543 (Selaginella moellendorffii), 5'ss of exon 6
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttgctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt
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ATATTTCGCAAAGAACCATTCTTTTATGGCCATGACAATCACGATCAGCTGGTGAAGATTGCCAAGgttttaaac-ccagaatgtctgtttgttgctgtttttgacgttggcttgtggtgtttag-----------------------------------------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|208215776|gb|GE008544.1|GE008544EST: CTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAG GTGCTTGGGACTGATGAACTGAATGCATATCTTAATAAGTATCATCTGGAG
genomic: CTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccg ... tgatatgtagGTGCTTGGGACTGATGAACTGAATGCATATCTTAATAAGTATCATCTGGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATATTTCGCAAAGAACCTTTCTTTTATGGTCATGACAACCATGATCAGCTTGTCAAAATAGCTAAGgtaacatccgtcatggtttgcaattatttataagtgtttggttatcttgctgtcaccatacacagtaatttcatgttttggttccagattatgatatatt
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