Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgctgttctatctatcccgtaaattatgataaggagtttgctgagatcaccagatgaacttatctgagcttatgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G347541_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g02464.1 (Oryza sativa), 3'ss of exon 4
gtatgtgctgttctatctatc----ccgtaaattatgataaggagtttgctgagatcaccagatgaacttatctgagcttatgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
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gtttgtgctctgctatccatcataactacaagaagtagaacgcaattt--tgaggttccttg-tgtgcttatccaaatctttgtttgtcagGGAAACTTGATAAAGGAGCGGTTCTTAAGGCAATTTGTGCTGGTTTTCGAGAAACCACTGAACCAGCTGTTTGCTTGAGTGAAG
upper sequence: GRMZM2G347541_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g02390.1 (Oryza sativa), 3'ss of exon 4
gtatgtgctgttctatctatcccgtaaattatgataaggagtttgc-----tgagatcaccagatgaacttatctgagcttatgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
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gtttgtgctctgctatccatcat---aactacaagaagtagaatgcaattttgaggtt-cctggtgtgcttatccaaatctttgtttgtcagGGAAACTTGATAAAGGAGCGGTTCTTAAGGCAATTTGTGCTGGTTTTCGAGAAACCACTGAACCAGCTGTTTGCTTGAGTGAAGMapped 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|71299569|gb|DR785796.1|DR785796EST: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAG GGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
genomic: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
EST:
gi|211315827|gb|FK969310.1|FK969310EST: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAG GGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGYSSTGGNCTTTAGG
genomic: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGG-CTTTAGG
EST:
gi|67028179|gb|CO456928.1|CO456928EST: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAG GGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
genomic: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
EST:
gi|211315829|gb|FK969312.1|FK969312EST: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAG GGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTS-TGGNCTTTAGG
genomic: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGG-CTTTAGG
EST:
gi|211315828|gb|FK969311.1|FK969311EST: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAG GGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
genomic: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
EST:
gi|211313818|gb|FK969308.1|FK969308EST: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAG GGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
genomic: TGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGG
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),
48 (downstream exon)
Score:
423ATTGGCAAGGGTTCTCGTGGTGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
Block sizes:
49 (upstream exon),
46 (downstream exon)
Score:
165ATTGGCAAGGGTTCTCGTGGTGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
Block sizes:
49 (upstream exon),
49 (downstream exon)
Score:
92ATTGGCAAGGGTTCTCGTGGTGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
360ATTGGCAAGGGTTCTCGTGGTGATGTTACCATCTTACCAACTCTGGTAATCAACAATAGACAATACAGAGgtatgtgctg ... tgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gataaggagtttgctgagatcaccagatgaacttatctgagcttatgtttctcagGGAAGCTTGACAAAGGAGCAGTTCTTAAAGCACTTTGTGCTGGCTTTAGGGAAACCACCGAGCCAGCCGTTTGCTTGAGTGATG
tgtttctc CT-rich tract
ttatgttt TA-rich tract