Sequence
atgc intronic sequence ATGC exonic sequence...tggtgtacagtggcaggagttattcaatcaccatctgcatttaggaagtaagttcacagcgatcgatggcactaattatcttgtcaatatatgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G132804_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os01g17180.1 (Oryza sativa), 3'ss of exon 10
-tggtgtacagtggcaggagttattcaatcaccatctgcatttaggaagtaagttcacagcgatcgatggcactaattatcttgtcaatatat-gcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
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atgctgttcctcacggaggtctagttttttgtgaaatttgctttcgtac--agtgtacaagatgccttgtcatcgattgttctgtcaatgttttgcatgtagGAGCTAAATTTCCCAGAAAAGGATGTCGAGCAGCTCTTGGTCTCACTCATTCTGGATAACCGAATCCAGGGCCACATAGATCAGGTGAACAAGTTACTAG
upper sequence: GRMZM2G132804_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ29478 (Selaginella moellendorffii), 3'ss of exon 10
tggtgtacagtggcaggagttattcaatcaccatctgcatttaggaagtaagttcacagcgatcgatggcactaattatcttgtcaatatatgcatt-tagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
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-----------------------------------------------gtcggttttgtgcaaattctatccgctgccattcaactctcttgtgtaaaacagGAGCTCAACATTCCGGAAAGAGATGTGGAGCAGCTCTTGGTGTCTCTCATCCTGGACAACCGGGTTCACGGTCACATAGATCAAGTTCATCAGCTCCTGG
upper sequence: GRMZM2G132804_T01 (Zea mays), 3'ss of exon 10
lower sequence: EFJ28052 (Selaginella moellendorffii), 3'ss of exon 10
tggtgtacagtggcaggagttattcaatcaccatctgcatttaggaagtaagttcacagcgatcgatggcactaattatcttgtcaatatatgcatt-tagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
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-----------------------------------------------gtcggttttgtgcaaattctatctgctgccattcaactctcttgtgtaaaacagGAGCTCAACATTCCGGAAAGAGATGTGGAGCAGCTCTTAGTGTCTCTCATCCTGGACAACCGGGTTCACGGTCACATAGATCAAGTTCATCAGCTCCTGGMapped 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|29945495|gb|CB815668.1|CB815668EST: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAG GAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
genomic: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
EST:
gi|32935315|gb|CF040127.1|CF040127EST: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAG GAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
genomic: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
EST:
gi|32937219|gb|CF042038.1|CF042038EST: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAG GAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
genomic: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
EST:
gi|29945633|gb|CB815739.1|CB815739EST: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAG GAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
genomic: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
EST:
gi|60401353|gb|DN234160.1|DN234160EST: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAG GAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
genomic: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
EST:
gi|14202790|gb|BG836467.1|BG836467EST: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAG GAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
genomic: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
EST:
gi|32164838|gb|CD670156.1|CD670156EST: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAG GAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
genomic: TCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATC
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),
48 (downstream exon)
Score:
119CCGTAACTATATTGAGGATCTGTTGAAGAACATCAGAACCCAAGTGCTGCTCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
Block sizes:
46 (upstream exon),
48 (downstream exon)
Score:
65CCGTAACTATATTGAGGATCTGTTGAAGAACATCAGAACCCAAGTGCTGCTCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
112CCGTAACTATATTGAGGATCTGTTGAAGAACATCAGAACCCAAGTGCTGCTCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
Block sizes:
49 (upstream exon),
47 (downstream exon)
Score:
46CCGTAACTATATTGAGGATCTGTTGAAGAACATCAGAACCCAAGTGCTGCTCAAGCTTATTAAACCGTATACACGAATCAGGATTCCATTCATTTCGCAGgtagatattt ... atgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtaagttcacagcgatcgatggcactaattatcttgtcaatatatgcatttagGAACTCAATTTCCCGGAGAAGGATGTGGAGCAGCTGTTGGTATCGCTCATCCTGGACAACCGAATCCAAGGCCACATAGACCAGGTCAACAAGTTGCTAG
cactaat putative branch site (score: 46)
aatatatgcattta TA-rich tract