Sequence
atgc intronic sequence ATGC exonic sequenceCATTGACCAAGCTTCTCATAATTTGACTGTTGCTACTCGTAATACCTTTGGTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcaccatcattaagctattatatctaggctaataaagtatattttctcttagttctggagcagaagagctcatttcgttactgttgtccttgaa...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017086_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os01g36930.1 (Oryza sativa), 5'ss of exon 6
CATTGACCAAGCTTCTCATAATTTGACTGTTGCTACTCGTAATACCTTTGGTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgag------gtcaccatcattaagctattatatctaggctaataaagtatattttctcttagttctg-gagcagaagagctcatttcgttactgttgtccttgaa
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TGTTGACCAAGCCTCCCATAATTTGACTGTTGCAACTCGTAATACTTTCGGAGAGCTTGATCAAAGTGTTCGGCCTGTTGCACCTCTACTCTTCTTACAGgtcagcattcagcttaccccatttggccattacatctaaagctagagaat---cttcaattcgtttctgtgattaggagagctc-cagagctccttttatgtta---Mapped 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|211085323|gb|FL409653.1|FL409653EST: TGGTCTTGGATCAAAGTGGTCGCCCTGGTGCACCTCTACA-TTCTTGCAG ACACTGCGTAAAAAATACCCCGCA-TTTGC-CAGCAGCATAATA
genomic: TGATCTTG-ATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCC-GCAATTTGCACAGCAGCATAATA
EST:
gi|241994792|gb|GR421145.1|GR421145EST: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAG ACACTGCGTAAAAAATACCCGCAATTTGCGCAGCAGCATAATAATGTCTAC
genomic: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTAC
EST:
gi|211536230|gb|FL396283.1|FL396283EST: GTGATCTTGATCNAAGTGTTCGCCCTGGTGCACCTCTACNATTCTTGCAG ACACTGCGTAAAAA-TACCCGCA
genomic: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCA
EST:
gi|32935100|gb|CF039912.1|CF039912EST: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAG ACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTAC
genomic: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTAC
EST:
gi|31998167|gb|CD661962.1|CD661962EST: GTGATCTTGATCAAAGGGTTCGCCCTGTTGCACCTCTACAATTCTTGCAG ACACTGCGTAAAAAA
genomic: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAA
EST:
gi|33094903|gb|CF054897.1|CF054897EST: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAG ACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTAC
genomic: GTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTAC
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),
36 (downstream exon)
Score:
588CATTGACCAAGCTTCTCATAATTTGACTGTTGCTACTCGTAATACCTTTGGTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTACATGCAACAG
Block sizes:
49 (upstream exon),
36 (downstream exon)
Score:
920CATTGACCAAGCTTCTCATAATTTGACTGTTGCTACTCGTAATACCTTTGGTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTACATGCAACAG
Block sizes:
48 (upstream exon),
36 (downstream exon)
Score:
629CATTGACCAAGCTTCTCATAATTTGACTGTTGCTACTCGTAATACCTTTGGTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTACATGCAACAG
Block sizes:
49 (upstream exon),
36 (downstream exon)
Score:
674CATTGACCAAGCTTCTCATAATTTGACTGTTGCTACTCGTAATACCTTTGGTGATCTTGATCAAAGTGTTCGCCCTGTTGCACCTCTACAATTCTTGCAGgtgaggtcac ... ttttgagcagACACTGCGTAAAAAATACCCGCAATTTGCACAGCAGCATAATAATGTCTACATGCAACAG