Sequence
atgc intronic sequence ATGC exonic sequencegtttgagtctcttggtttacttattgttatttccttagattttattgtcatatttttttttttgttcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 3'ss of exon 8
--------gtttgagtctcttggtttacttattg---ttatttccttagattttat---tgtcatatttttttttttgttcaaaa-ctagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
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gtttgactttcttagcctcgtattattctcattaggtttatttggtttgacattatctttgttcttatcatctctttattgaaaagttagATTGGAGGAGTGCCTATCAAAATAGGAGGAATGGCCAAAGGTTCTGGGATGATTCATCCAAATATGGCAACAATGCTTGGT
upper sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 8
-------------------------gtttgagtctcttggtttacttattgttatttccttagattttattgtcatatttttttttttgttcaa-aactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
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ccaaaagttataggactaatttaaaatacaaacctacaacttgactgat-atgatagctttccataattctgttaagctttccatgttgggtgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
upper sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G19450.1 (Glycine max), 3'ss of exon 9
------------------------gtttgagtctcttggtttacttattgttatttccttagattttattgtcatatttttttttttgttcaa-aactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
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taacatgcttggttcattcccaaattctatatctgtttgctaatttgaagattgagaacaaagatagataatcttattattattgttgggtgttggttagATTGGAGGAACTAAGGTCAGAGTTGGGGGAATGGCAAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGGMapped 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|71298836|gb|DR785405.1|DR785405EST: CCATTACAACTACAGACCTTGGTAGCAAGAGCATTGCTGTCTAGACTGAG ATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTG
genomic: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTG
EST:
gi|148956344|gb|EC902151.2|EC902151EST: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAG ATTGGAGGAGTGGCTATT
genomic: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATT
EST:
gi|78092275|gb|DV520649.1|DV520649EST: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAG ATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATG
genomic: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATG
EST:
gi|149009106|gb|EE041258.2|EE041258EST: CATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGCTC-AGACTGAG ATTGCAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAACGTTCTGGAATG
genomic: CATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTG-TCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATG
EST:
gi|148932140|gb|EC875563.2|EC875563EST: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAG ATTGGAGGAGTGGCT
genomic: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCT
EST:
gi|60348874|gb|DN215847.1|DN215847EST: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAG ATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATG
genomic: CCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATG
EST:
gi|76917242|gb|DV166726.1|DV166726EST: GCATTGCTGTCCAGACTGAG ATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATG
genomic: GCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATG
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),
48 (downstream exon)
Score:
200TGCGAATTCTGCTGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
Block sizes:
49 (upstream exon),
47 (downstream exon)
Score:
179TGCGAATTCTGCTGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
Block sizes:
49 (upstream exon),
46 (downstream exon)
Score:
151TGCGAATTCTGCTGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
94TGCGAATTCTGCTGCTGTGGCCATTACAACTACAGACCTTGTTAGCAAGAGCATTGCTGTCCAGACTGAGgtttgagtct ... tcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattgttatttccttagattttattgtcatatttttttttttgttcaaaactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
tatttttttttttgtt CT-rich tract
ttatttccttagattt TA-rich tract