Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgttctgcactgtccataccatgtcggccatctatggattttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G131756_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g37410.1 (Oryza sativa), 3'ss of exon 10
gtaagtgttctgcactgtccataccat----gtcggccatctatggattttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
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gtaagaatgttgcattgtctactacatttgtataaatactctgcaattttatatgattatgtttcaatttaaatatattgatt---ttgtttgttccttgaaagATACCCTGTCTTGGAGACTATACAAAAGTACCTCTGGCCTCGTCTGTGTAAACTTGATCAACAAACACT
upper sequence: GRMZM2G131756_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g37350.1 (Oryza sativa), 3'ss of exon 9
gtaagtgttctgcactgtcca-tac-----catgtcggccatctatggattttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
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gtaagaatgttgcattgtctactacagttgtataaatactctctgcaattttatacgatgatgtttcaatttgaatatattgatt---ttgtttgtgccttcaaagATACCCTGTCTTGGAGACTATACAAAAGTACCTCTGGCCTCGTCTGTGTAAACTTGATCAACAAACACTMapped 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|67026937|gb|CO455686.1|CO455686EST: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCT ATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAA
genomic: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAA
EST:
gi|87156096|gb|DY400885.1|DY400885EST: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCT ATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAA
genomic: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAA
EST:
gi|94473171|gb|EB702129.1|EB702129EST: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCT ATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAA
genomic: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAA
EST:
gi|26559363|gb|CA831598.1|CA831598EST: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCT ATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCT
genomic: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCT
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),
37 (downstream exon)
Score:
201GTTGACACCAATGTTGGTCGTATATGTGTAAGACTGGGATGGGTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
Block sizes:
47 (upstream exon),
37 (downstream exon)
Score:
15GTTGACACCAATGTTGGTCGTATATGTGTAAGACTGGGATGGGTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
Block sizes:
49 (upstream exon),
37 (downstream exon)
Score:
49GTTGACACCAATGTTGGTCGTATATGTGTAAGACTGGGATGGGTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
Block sizes:
48 (upstream exon),
37 (downstream exon)
Score:
73GTTGACACCAATGTTGGTCGTATATGTGTAAGACTGGGATGGGTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
atctgat putative branch site (score: 73)
ttccaccacttccttt CT-rich tract
ttttttt TA-rich tract