Sequence
atgc intronic sequence ATGC exonic sequence...gttcatttcatttcaccggaacagaagtccatttaatctgctttgctctgctgtcgttcggttatcacttattgattgtacatatccatgcttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAATCCAAAAGTTCAACTTCTTGCGCTAACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G153138_T02 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g12880.1 (Oryza sativa), 3'ss of exon 1
-gttcatttcatttcaccggaacagaagtccatttaatctgctttgctctgctgtcgttcggttatcacttattgattgtacatatccatgcttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAATCCAAAAGTTCAACTTCTTGCGCTAACT
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ggttgaggttgactctgaagatgaatatttattgtattgtaaataatttctttcgttttggttcgtcaattattgat-gagcaaacatttgtcatgtacagGCAATCAAAAGATGTTGTTAAGGCACTCAAGAAAAGGATTGGGCACAAAAATCCAAAAGTCCAAATTCTTGCGCTGACT
upper sequence: GRMZM2G153138_T02 (Zea mays), 3'ss of exon 1
lower sequence: Vv04s0008g03720.t01 (Vitis vinifera), 3'ss of exon 1
-----gttcatttcatttcaccggaacagaagtccatttaatctgctt-tgctctgctgtcgttcggttatcacttattgattgtacatatccatgcttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAATCCAAAAGTTCAACTTCTTGCGCTAACT
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aacctctttgttgcaatttactattatggggaaattcatactgtatttgtgctgttcaatc-tagggtgaataattcttga----atatggttttgatt-tatcagGCAAGCAAAGGATGTGGTCAAAGGCATAAAAAAGCGCATTGGAAGTAAGAATCCAAAAGTTCAACTTCTTGCACTGACGMapped 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|18655221|gb|BM500026.1|BM500026EST: GACTGGGCTAAGAACATGGAGATCTGCGACATCTGCAACCGCGACCCCGG GCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAA
genomic: GACTGGGCTAAGAACATGGAGATCTGCGACATATGCAACCGCGACCCTGGgtacgtaccc ... cttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAA
EST:
gi|18963194|gb|BM660294.1|BM660294EST: GATCTGCGACATCTGCAACCGCGACCCCGG GCAATCGAAAGATGTCTGTCAAGGCACTGAAGAAACGGATTGGCCACAAGA
genomic: GATCTGCGACATATGCAACCGCGACCCTGGgtacgtaccc ... cttgtcacagGCAATCGAAAGATGTC-GTCAAGGCACTGAAGAAACGGATTGGCCACAAGA
EST:
gi|42491897|gb|CK700943.1|CK700943EST: GACTGGGCTAAGAACATGGAGATCTGCGACATATGCAACCGCGACCCTGG GCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAA
genomic: GACTGGGCTAAGAACATGGAGATCTGCGACATATGCAACCGCGACCCTGGgtacgtaccc ... cttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAA
EST:
gi|18662217|gb|BM501806.1|BM501806EST: GACTGGGCTAAGAACATGGAGATCTGCGACATCTGCAACCGCGACCCCGG GCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAA
genomic: GACTGGGCTAAGAACATGGAGATCTGCGACATATGCAACCGCGACCCTGGgtacgtaccc ... cttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAA
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 1 RNA-Seqlibrary.
Block sizes:
17 (upstream exon),
33 (downstream exon)
Score:
1TGGCAGGCTCCATGGTGGACCGCGCCACCAGCGACATGCTCATCAGCCCGGACTGGGCTAAGAACATGGAGATCTGCGACATATGCAACCGCGACCCTGGgtacgtaccc ... cttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAATCCAAAAGTTCAACTTCTTGCGCTAACT
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctgctgtcgttcggttatcacttattgattgtacatatccatgcttgtcacagGCAATCGAAAGATGTCGTCAAGGCACTGAAGAAACGGATTGGCCACAAGAATCCAAAAGTTCAACTTCTTGCGCTAACT
tattgat putative branch site (score: 1)
ttattgatt TA-rich tract