Sequence
atgc intronic sequence ATGC exonic sequenceCTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctttttgcttcttgataaatattaattgttatcgtttcaggtattttttcaggcatatcctgtttgtgtgtatcctgcaagggcttcattctt...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G126038_T01 (Zea mays), 5'ss of exon 2
lower sequence: LOC_Os03g50540.1 (Oryza sativa), 5'ss of exon 2
CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgccttttt----gcttcttgataaatattaattgttatcgtttcaggtattttttcaggcatatcctgtttgtgtgtatcctgcaagggcttcattctt
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CTGACCGTGGTCGGTTCACTGAGATGAAGCGGTCCGTTGTGGACAAGAATTTGGGCCCATTGGTGAAGACAGTGATGACCCGTTGCATCCAATGTACAAGgtaatgtttttttttttgcttttcagtagatttgaatgagtatccacttaaagaggtttactgctgt-tcagttttgtctattgtctgctccctctgcttc---
upper sequence: GRMZM2G126038_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA18G04730.1 (Glycine max), 5'ss of exon 2
CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgt-aatg----------cctttttgcttcttgataaatat-taattgttatcgtttcaggtattttttcaggcatatcctgtttgtgtgtatcctgcaagggcttcattctt-----------------------------------------------------------------------
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-TGATCGTGGACGGTTCACTGAAGTGAAGAGATCTGTGGTTGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGGtcaatattggactaaactttcttttttccccctgtaaacctgattattgtgaatgcag--attttattaaacatgctacacat-tggaaatcatattatgacttatttcttagaaaaatatcaattactttaatctgagtgcctgaaagggctctggtggaatgtttctttcttccaacaga
upper sequence: GRMZM2G126038_T01 (Zea mays), 5'ss of exon 2
lower sequence: GLYMA11G33480.1 (Glycine max), 5'ss of exon 2
CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgt------------aatgcctttttgcttcttgataaatattaattgttatcgtttcaggtattttttcaggcatatcctgtttgtgtgtatcctgcaagggcttcattctt------------------------------------------------------------------------
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CTGATCGTGGGCGGTTCACTGAAGTGAAGAGATCTGTGGTAGATAAAAATCTTGGACCTCTGGTGAAGACTGTGATGACTCGGTGCATTCAATGTACAAGgtcaatattggactaaactttatttttttccctgtaaat-ctgattattgtgaatgcag--attttattaaacatgttacacat-tggaaatcatattatgacttatttcttctaaaaacttattaaatactttaatctgagtgcctgaaagggctctggtggaatgtttctttctttcaacag
upper sequence: GRMZM2G126038_T01 (Zea mays), 5'ss of exon 2
lower sequence: Vv14s0006g02020.t01 (Vitis vinifera), 5'ss of exon 2
CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgta---atgcctttttgcttcttgataaatattaattgttatcgtttcaggtattttt--tcaggcatatcctgtttgtgtgt-atcctgcaagggcttcattctt
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CTGATCGCGGCCGTTTCACTGACATGAAGCGATCTGTGGTTGATAAGAATCTTGGCCCTTTGGTTAAGACTGTGATGACTCGTTGCATTCAGTGTACACGgtatgaatgtgtgatcacttctcccttgt--tttattactattaatatgaatatttcaagttaagaaactttggtctaagtgggattttacctaattttcag----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|149088448|gb|EE177551.2|EE177551EST: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAG GTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATG
genomic: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATG
EST:
gi|148995495|gb|EE034685.2|EE034685EST: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAG GTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTT
genomic: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTT
EST:
gi|148999521|gb|EE036489.2|EE036489EST: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAG GTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTT
genomic: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTT
EST:
gi|78085646|gb|DV514039.1|DV514039EST: TTGGGTCCCTTGGTTAAGACAGTGATGACTCCTTGCATCCAATGAACAAG GTGTGTAAGGTTTGCT
genomic: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCT
EST:
gi|211377236|gb|FL413745.1|FL413745EST: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAG GTGTGTCAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTT
genomic: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTT
EST:
gi|91052333|gb|EB162751.1|EB162751EST: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCCATGTACAAG GTGTGTAAAGTTTG
genomic: TTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTG
RNA-Seq data
ATGC Supported by RNA-Seq exonic block that spans over the splice site
atgs Truncated intron sequence
Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.
Found data for 4 RNA-Seq libraries.
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
228CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTTAGGTCGTGGCAGTGGTGAAGAAATTGGAACATATGTTGAGAAACTTATG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
234CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTTAGGTCGTGGCAGTGGTGAAGAAATTGGAACATATGTTGAGAAACTTATG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
212CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTTAGGTCGTGGCAGTGGTGAAGAAATTGGAACATATGTTGAGAAACTTATG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
302CTGACCGCGGTCGGTTCACTGAGATGAAGCGTTCAGTTGTGGACAAGAATTTGGGTCCCTTGGTTAAGACAGTGATGACTCGTTGCATCCAATGTACAAGgtaatgcctt ... caaattgcagGTGTGTAAGGTTTGCTACTGAGGTTGCTGGAGTTCAAGACCTTGGTATGTTAGGTCGTGGCAGTGGTGAAGAAATTGGAACATATGTTGAGAAACTTATG