Sequence
atgc intronic sequence ATGC exonic sequencegtcgctcatcccgttgaatgcctctgcttttgagacatgcttgattctctagaataacttgttactgtattacttaactgcttcattttgctacctcggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTGTTTGCGCTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G105539_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g51100.1 (Oryza sativa), 3'ss of exon 1
gtcgctcatcccgttgaatgcctctgcttttgagacatgcttgattctctagaataacttgttactgtattacttaactgcttcattttgctacctcggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTGTTTGCGCTTGAG
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gtcgcctcccccgtcgagcacct--gctgt---------ctcggttc---gaggtttcttgtgtgcgtactgcgtagctaacatcacttcctgcctactcattttagGATTTGAGCGGCGGGGCGCTCGTGCCGGTCGAGGGGCCTGAGGCGCCATTGTTTGCGCTTGAGMapped 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|148958813|gb|EC905077.2|EC905077EST: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAG GATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTG
genomic: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTG
EST:
gi|211515140|gb|FL351614.1|FL351614EST: TCGTCGTCTCCACCGANCCTGCGCACTCGCTCAGCGATTCCTTCGCACAG GATTTGAGTGGCGGGAC
genomic: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGAC
EST:
gi|211378591|gb|FL355184.1|FL355184EST: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAG GATTTGAGTGGCGGGACGCTCGTGCAGGTCG
genomic: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCG
EST:
gi|148962847|gb|EE013769.2|EE013769EST: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAG GATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTG
genomic: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTG
EST:
gi|211263383|gb|FL364886.1|FL364886EST: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAG GATTTGAGTGGCGGGA
genomic: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGA
EST:
gi|211308753|gb|FL367414.1|FL367414EST: TCGTCGTCTCCACYGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAG GATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCA
genomic: TCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCA
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:
46 (upstream exon),
46 (downstream exon)
Score:
74CTGCGCGGCGTCGTTGGCCGTGCGGTTCGCCAACAACGGCCACCCGACCCTCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTGTTTGCGCTTGAG
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
156CTGCGCGGCGTCGTTGGCCGTGCGGTTCGCCAACAACGGCCACCCGACCCTCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTGTTTGCGCTTGAG
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
90CTGCGCGGCGTCGTTGGCCGTGCGGTTCGCCAACAACGGCCACCCGACCCTCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTGTTTGCGCTTGAG
Block sizes:
48 (upstream exon),
45 (downstream exon)
Score:
65CTGCGCGGCGTCGTTGGCCGTGCGGTTCGCCAACAACGGCCACCCGACCCTCGTCGTCTCCACCGACCCTGCGCACTCGCTCAGCGATTCCTTCGCACAGgtcgctcatc ... ggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTGTTTGCGCTTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aataacttgttactgtattacttaactgcttcattttgctacctcggcgtttcagGATTTGAGTGGCGGGACGCTCGTGCAGGTCGAGGGCCCTGATTCACCTCTGTTTGCGCTTGAG
tattacttaa TA-rich tract