Sequence
atgc intronic sequence ATGC exonic sequencegtaactggcttattttctcttaacaattttttttggccttgccgtgagccctacattttccgattcaatcaacctagctgacttagctcattgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G050961_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os10g41710.1 (Oryza sativa), 3'ss of exon 5
------------------------------------------------------------------------------------------gtaactggcttattttctcttaacaattttttttggcct---tgccgtgagccctacattttccgattcaatcaacctagctgacttagctcattgtgt---tgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC-----
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gtaaatgaattggcttctccctaacggatacattttgtggtctttctcctaagtactccctccgtcccaaaaaaaaggcaacctagaaggggatgtgacccctcctagtataacgaatctgaaaggagggagtacgatgccttttttggtttttgttccagtcatctgaacgctcatggtattgcatgtacttgcagGTGGACCTGGGTACCGATGA---GAAGCACTGCTTCTGCCGTGAGTCTGATCTGTTAGCCGTTGTTGAATGAGTTTTTACTCCAAAAT--CGGAGTGTCCAATTCMapped 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|113796158|gb|DW913371.1|DW913371EST: AGACATCAATGCTTATGAG GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: AGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST:
gi|166466537|gb|EG225135.1|EG225135EST: GTTCTCTTCTCAGACATCAATGCTTATGAG GTGGAGCTTGG
genomic: GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGG
EST:
gi|211349701|gb|FL449949.1|FL449949EST: GTTCTCTTCTCAGACATCAATGCTTATGAG GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST:
gi|6342692|gb|AW165516.1|AW165516EST: GTTCTCTTCTCAG-CATCAATGCTTATGAG GTGGAGCTTGGTACTGATGACGAGAAGCACTGCTTCTGCCGTGAGTCAGNC
genomic: GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST:
gi|113799136|gb|DW919645.1|DW919645EST: CTCAGACATCAATGCTTATGAG GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: CTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST:
gi|13249748|gb|BG360653.1|BG360653EST: GTTCTCTTCTCAGACATCAATGCTTATGAG GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST:
gi|6431818|gb|AW172022.1|AW172022EST: GTTCTCTTCTCAGACATCAATGCTTATGAG GTGGAGCTTGG-ACTGATGACGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
EST:
gi|211485848|gb|FK973440.1|FK973440EST: GTTCTCTTCTCAGACATCAATGCTTATGAG GTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
genomic: GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGAC
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:
48 (upstream exon),
40 (downstream exon)
Score:
159GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
370GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC
Block sizes:
46 (upstream exon),
48 (downstream exon)
Score:
108GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC
Block sizes:
46 (upstream exon),
32 (downstream exon)
Score:
197GTTCTCTTCTCAGACATCAATGCTTATGAGgtaactggct ... tgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agccctacattttccgattcaatcaacctagctgacttagctcattgtgttgtagGTGGAGCTTGGTACTGATGAAGAGAAGCACTGCTTCTGCCGTGAGTCAGACTTGTTAGCTGTAGTTGAATGAATTTTACCATGAAAATTTCGGACTTACC
agctgac putative branch site (score: 197)
tacatttt TA-rich tract