Sequence
atgc intronic sequence ATGC exonic sequencegtgagccgttgtagtttctcagatgccatccagttggttttttcaagctctaatccctatgtttcctatttgcatctttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G173682_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g58560.1 (Oryza sativa), 3'ss of exon 8
gtgagccgttgtagtttctcagatgccatccagttggttttttcaagctctaatccctatgtttcctatttgc-----atctttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
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gtgaactgtgattgtcgaacaaatgtcgcgtcatcattttaagttcactctaatcttggt-tttcttatttactgtctgcctgcttatgtagATGACTTCGATGATTTCTGTTCTCGCGCCACTGAGCTAGTAGATAAAGCCAATGGAGCACCACTCTTCACTGTTGTGCAGTCGGTTCAACCGTCAAAACA
upper sequence: GRMZM2G173682_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g27350.2 (Oryza sativa), 3'ss of exon 8
gtgagccgttgtagtttctcagat------gccatccagttggttttttcaagctctaatccctatgtttcctatttgcatctttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
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gtgaactgttattgccagataaaatgttgggtcatcatttaagttcactccaatcttggttttcttatttactctgtctgtctgcttatgtagACGACTTTGATGATTTCTGTTCTCGGGCCTCTGAGCTAGTGGACAAAGCCAATGGAGCACCACTCTTCACCGTTGTGCAGTCGGTTCAACCTTCAAAACAMapped 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|86473490|gb|DY239860.1|DY239860EST: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
EST:
gi|148949197|gb|EC894635.2|EC894635EST: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTTTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
EST:
gi|211435917|gb|FL467684.1|FL467684EST: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
EST:
gi|110210894|gb|EC892791.1|EC892791EST: TTGGTTTTTTCTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTTTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: TTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
EST:
gi|87157629|gb|DY402418.1|DY402418EST: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
EST:
gi|84969916|gb|DV170881.2|DV170881EST: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
EST:
gi|22715457|gb|BU197774.1|BU197774EST: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
EST:
gi|211435918|gb|FL467685.1|FL467685EST: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAG ACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
genomic: AGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCA
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:
47 (upstream exon),
46 (downstream exon)
Score:
23TGTTGTCCGAGATTTGGCTCTAGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
Block sizes:
48 (upstream exon),
47 (downstream exon)
Score:
36TGTTGTCCGAGATTTGGCTCTAGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
Block sizes:
49 (upstream exon),
47 (downstream exon)
Score:
26TGTTGTCCGAGATTTGGCTCTAGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
Block sizes:
49 (upstream exon),
47 (downstream exon)
Score:
35TGTTGTCCGAGATTTGGCTCTAGAACAAATAGACCCATCCCTAGCCATTGGTTTTTACTGTCGCGACAAAGgtgagccgtt ... ttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttggttttttcaagctctaatccctatgtttcctatttgcatctttttacgcagACGATTTCGATGATTTCTGTTCTCGGGCATCTGAGTTGGCAGAGAAAGCCAATGGAGCGCCACTCTTTACTGTCATGCAGTCAGTCCAGCCATCGAAGCA
ctctaat putative branch site (score: 35)
catcttttt putative PPT
ttttttcaa TA-rich tract