Sequence
atgc intronic sequence ATGC exonic sequencegtaagcggagcgctaagaagcatccagcatgctgcatgcatgcacggacccccggcgctatgctactgttacaccgcaacagtgctctacacagacagacagacaaactgacatgctctgcttgcagTTTCGACAGAGACCTGCGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCACTGCGACAGCGCCAACGGGTTCCAGGTCACGGCCGCCGCGCTCCAGGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G163015_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os05g25490.1 (Oryza sativa), 3'ss of exon 2
gtaagcggagcgctaagaagcatccagcatgctgcatgcatgcacggacccccggcgctatgctactgttacaccgcaacagtgctctacacagaca-gacagacaaactgacatg---ctctgcttgcagTTTCGACAGAGACCTGCGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCACTGCGACAGCGCCAACGGGTTCCAGGTCACGGCCGCCGCGCTCCAGGCG
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-------------------------------caataatcctgtgcaccagctcagtgctcagcttcagacccatcagagtggctgacatgacatccatggcggctgtgcgcgcgggtgcctgtgcatgcagGTTCGACAGGGACCTGAGGTGGAGGACGGGCGTCAACGTCGTGCCGGTGCACTGCGACAGCGCGAACGGGTTCCAGGTCACGGCCGCCGCGCTCCAGGCG
upper sequence: GRMZM2G163015_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g09700.1 (Oryza sativa), 3'ss of exon 4
gtaagcggagcgctaagaagcatccagcatgctgcatgcatgcacggacccccggcgctatgctactgttacaccgcaacagtgctctacacagacagacagac-aaactgacatgctctgcttgcagTTTCGACAGAGACCTGCGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCACTGCGACAGCGCCAACGGGTTCCAGGTCACGGCCGCCGCGCTCCAGGCG
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--------------------------gtaagccactgttccattgccattgccattgccatgcatctagc-tagcttgggatcgatcga-gcagagtggcaggctgagctgacatccatggcgtgcagGTTTGACAGGGACTTGAGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCGGTGCGACAGCGCGAACGGGTTCCAGGTCACGGTCGCCGCGCTCCAGGCGMapped 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|149098178|gb|EE184141.2|EE184141EST: CTGGCCAACCCGGGAGACGCGCTGCTGATCCCTACTCCTTACTATCCTGG TTTCGACAGAGACCT
genomic: CTGGCCAACCCGGGAGACGCGCTGCTGATCCCTACTCCTTACTATCCTGGgtaagcggag ... ctgcttgcagTTTCGACAGAGACCT
EST:
gi|148948786|gb|EC894187.2|EC894187EST: CTGGCCAACCCGGGAGACGCGCTGCTGATCCCTACTCCTTACTATCCTGG TTTCGACAGAGACCTGCGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCA
genomic: CTGGCCAACCCGGGAGACGCGCTGCTGATCCCTACTCCTTACTATCCTGGgtaagcggag ... ctgcttgcagTTTCGACAGAGACCTGCGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCA
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:
40 (upstream exon),
49 (downstream exon)
Score:
7TCGTGCTCACCGCCGGCGCCACGGCAGCTAACGAGCTGCTCACGTTCGTCCTGGCCAACCCGGGAGACGCGCTGCTGATCCCTACTCCTTACTATCCTGGgtaagcggag ... ctgcttgcagTTTCGACAGAGACCTGCGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCACTGCGACAGCGCCAACGGGTTCCAGGTCACGGCCGCCGCGCTCCAGGCG
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atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accgcaacagtgctctacacagacagacagacaaactgacatgctctgcttgcagTTTCGACAGAGACCTGCGGTGGAGGACGGGGGTGAACATCGTGCCGGTGCACTGCGACAGCGCCAACGGGTTCCAGGTCACGGCCGCCGCGCTCCAGGCG
aactgac putative branch site (score: 7)
ctctgctt putative PPT