Sequence
atgc intronic sequence ATGC exonic sequence...ttgatagagaggtctatatgattctgtcagtatgattgtgttaatgtttatatgctttatcttgctactctctagcggctcataattaatatccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAATTTACCGCAGGAATAATGGCTCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G063909_T03 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g33240.3 (Oryza sativa), 3'ss of exon 7
ttgatagagaggtctatatgattctgtcagtatgattgtgttaatgtttatat-gctttatcttgctactctctagcggctcataattaatatccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAATTTACCGCAGGAATAATGGCTCTTCAG
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tagggagtactgcatataaatttggacttctataaac-tgatagtatgttcaccacttggctactgggctcccatttgattgacatatgatatggatgcagGCCATGTGTATAAGGCAATTGATGCTCTCCCTGTAACTGCTCATCCAATGACACAGTTTACCACAGGGGTGATGGCACTTCAAMapped 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|6526999|gb|AW216224.1|AW216224EST: TCAAGTTGATGCTCTATCAAAAGAATTGCTTGCACGCTCAACTGTCCCAG CTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGA
genomic: TCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGA
EST:
gi|71303469|gb|DR787844.1|DR787844EST: CAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTTCA-CTGTCCCAG CTCATGTCTATNAGGGAATAGATGC
genomic: CAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCT-CAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGC
EST:
gi|148965958|gb|EE016876.2|EE016876EST: TCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAG CTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGA
genomic: TCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGA
EST:
gi|78088374|gb|DV516767.1|DV516767EST: TCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAG CTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGA
genomic: TCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGA
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),
49 (downstream exon)
Score:
203GTCCCAACCAAAGATCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAATTTACCGCAGGAATAATGGCTCTTCAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
270GTCCCAACCAAAGATCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAATTTACCGCAGGAATAATGGCTCTTCAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
42GTCCCAACCAAAGATCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAATTTACCGCAGGAATAATGGCTCTTCAG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
95GTCCCAACCAAAGATCAAGTTGATGCTCTATCAAAAGAATTGCTTGCGCGCTCAACTGTCCCAGgtattttgat ... atccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAATTTACCGCAGGAATAATGGCTCTTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttatatgctttatcttgctactctctagcggctcataattaatatccttgcagCTCATGTCTATAAGGTAATAGATGCTCTCCCAGTAACTGCACATCCTATGACACAATTTACCGCAGGAATAATGGCTCTTCAG
aattaat putative branch site (score: 95)
tatcctt CT-rich tract
ataattaatatcctt TA-rich tract