Sequence
atgc intronic sequence ATGC exonic sequencegtaccttgccgagtctttcagctacagctcgcctgtgattggacatattgggtggcgttaattaacctgctccaatttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g03260.1 (Oryza sativa), 3'ss of exon 4
gtaccttgccgagtctttcagctacagctcgcctgtgattggacatattgggtggcgttaattaacctgctccaatttctgt-tagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
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gtactt---ccagtgaatgtgctaatgcaggaatctggt-ggtttcataggacag----gattaacctgctccaattgttgtctagGTTCTCCTTGGTACTGATTCTCATACATGCAATGCTGGAGCCTTTGGCCAATTTGCAACTGGAATTGGAAACACTGATGCTGGTTTTGTGATGGGCACTG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA17G37540.1 (Glycine max), 3'ss of exon 5
-------gtaccttgccgagtcttt---cagctacagc------tcgcctgtg-attggacata---ttgggtggcg-ttaattaacctgctccaatttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
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ggttcgcttagtttaaccagtttttattttattatagtgaagtattgttcatttgtttgacagaagtttggttcctgctttgctaatttctctctgttacctgcaGGTTCTCTTAGGTACTGATTCTCACACTTGTACTGCTGGAGCATTTGGCCAATTTGCTACAGGGATTGGTAATACTGATGCTGGCTTTGTGCTGGGAACT-
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G40570.1 (Glycine max), 3'ss of exon 5
------gtaccttgccgagtctttca--gctacagctcgcctgtgattggacatattgggtggcgttaattaacctgct-ccaatttctgt--------tagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
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gtttgcttagtttaacaagtttttttttattatagtgaagcattgttcatttgtttgacagaagtttggttcctcctttgctaatttctctgttacctgcagGTTCTCTTAGGTACTGATTCTCACACTTGTACTGCTGGAGCATTTGGTCAATTTGCTACAGGGATTGGTAATACTGATGCCGGCTTTGTGCTGGGAACTG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT4G13430.1 (Arabidopsis thaliana), 3'ss of exon 5
----gtaccttgccgagtctttcagctacagctcgcctgtgattggacata---ttgggtggcgttaattaacctgctccaatttctgt----tagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
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gtaaagatctctttcactggatatgat-tggctttcttgtgattgaatatggatttgtttgattatgttcgaaatgatgtgttttttctattatagGTTTTGTTAGGAACAGACTCACACACTTGTACTGCTGGAGCATTTGGTCAATTTGCTACAGGGATTGGAAACACTGATGCAGGTTTTGTGTTAGGCACTG
upper sequence: GRMZM2G010044_T02 (Zea mays), 3'ss of exon 4
lower sequence: PP1S227_66V6.1 (Physcomitrella patens), 3'ss of exon 5
---------------------------------------------------gtaccttgccgagtctttcagctacagctcgc-------ctgtgattggacatattgggtggcgttaattaacctg-ctccaatttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
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gtatttgttacggaagttttcgttactgtcgaatatgccgtagtgcataatgttgctcgttgacatatgcagccccgtctaccacatttacagtttttggatttttcgcaagttaaatacgatcgtggcttcaatgggcgt-agGTTCTCTTCGGCACAGATTCCCACACTTGCAATGCTGGAGCGTTTGGTCAGTTTGCAACAGGGATCGGTAACACTGATGCAGGCTTTATTATGGGCACCGMapped 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|31355882|gb|CD440239.1|CD440239EST: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAG GTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAG
genomic: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAG
EST:
gi|71772889|gb|DR970812.1|DR970812EST: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAG GTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAG
genomic: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAG
EST:
gi|31354069|gb|CD438426.1|CD438426EST: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAG GTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAG
genomic: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAG
EST:
gi|76012112|gb|DT939282.1|DT939282EST: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAG GTTCTCTTGGGCACTGATTCTCATACATGCCATGCTGGAGCTTTTGGTCAG
genomic: GCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAG
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:
40 (upstream exon),
46 (downstream exon)
Score:
26GCTAATCCGGACTACAAAGGCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
Block sizes:
46 (upstream exon),
46 (downstream exon)
Score:
53GCTAATCCGGACTACAAAGGCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
Block sizes:
48 (upstream exon),
46 (downstream exon)
Score:
32GCTAATCCGGACTACAAAGGCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
Block sizes:
44 (upstream exon),
46 (downstream exon)
Score:
28GCTAATCCGGACTACAAAGGCGTCTGCCACATCGCACTTGCTCAGGAAGGCCACTGCCGACCAGGCGAGgtaccttgcc ... tttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctgtgattggacatattgggtggcgttaattaacctgctccaatttctgttagGTTCTCTTGGGCACTGATTCTCATACATGCAATGCTGGAGCTTTTGGTCAGTTTGCAACTGGAATCGGAAACACTGATGCAGGTTTTGTGTTGGGCACTG
aattaac putative branch site (score: 28)
tttctgtt putative PPT
ttaattaa TA-rich tract