Sequence
atgc intronic sequence ATGC exonic sequencegtcagcactctttcatactgaacctttttttgttaataccattgtcagtcactcagttagttggttccatttttctcatcttgatgcttcagctgatctggctttgtttggttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G150251_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv06s0009g03520.t01 (Vitis vinifera), 3'ss of exon 8
-------------gtcagc--actctttcatactgaacctttttttgttaataccattgtcagtcactcagtt--agttggttcc---atttttctcatcttgatgcttcagctgatctggctttgtttggttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG
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gtcagttatccaggtcaactgagatattaatcctggatattctggtttttggttcaatttatttcgctctgttgtaattaatcattaagtttaatttactttattattctaaatgtaataacagttcaattctttttgcagCTTTTGTTCCCAACAGCTGATTCTGCCCGGCCATTTTCCATGCTTGGACTTGGTGACATTGTAATCCCTGMapped 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|33092200|gb|CF052194.1|CF052194EST: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCGATAAAG CTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
genomic: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
EST:
gi|33093608|gb|CF053602.1|CF053602EST: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCGATAAAG CTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
genomic: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
EST:
gi|78123104|gb|DV541488.1|DV541488EST: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG CTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
genomic: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
EST:
gi|32837706|gb|CD977384.1|CD977384EST: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCGATAAAG CTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
genomic: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
EST:
gi|76282340|gb|DV021908.1|DV021908EST: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAG CTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
genomic: TCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTT
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:
82GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
55GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
72GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
94GGTGGACTTTTTGTGTATGACATTTTCTGGGTGTTCTTCACTCCAGTTATGGTCAGTGTGGCTAAATCTTTTGATGCTCCTATAAAGgtcagcactc ... ttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatttttctcatcttgatgcttcagctgatctggctttgtttggttatgtacagCTTCTGTTTCCTACTGCGGATGATGCACGGCCATTCTCCATGCTTGGCCTTGGTGACATTGTAATACCTG
agctgat putative branch site (score: 94)
tttgttt TA-rich tract