Sequence
atgc intronic sequence ATGC exonic sequencegtgagcccccccggcccccgtcgctcattcaattcatggcggcgtctcgaccagtgttactgactgtccctccgcgtgtcggcgcgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os05g37470.1 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------------------------------gtgagccc--ccccggcccccgtcgctcattcaattcatggcggcgtctcgaccagtgttactgact-------gtccctccgcgtgt-cggcgcgccgg-acagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
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gtgagtcctcgatcatcgcccgccgtcgtcggccataaatcaataaatcatcagccggcacatgcttgaccacactgtttataagcatggttgcaatgattatgtatgattcgattcgatggggggctaataacgatgtgtatgattcggcgtggccgctgatcgaattcgactcgatgtcgcagGTCGACGGCGTGACGCACTCGGGCCCGAGCAAGATGGTGCTCTACTTCACTGGCGCCACCAACATCCTCTACACTTTCGGCGGACACGCCGTCACTGT
upper sequence: GRMZM2G067022_T02 (Zea mays), 3'ss of exon 4
lower sequence: AT5G01240.2 (Arabidopsis thaliana), 3'ss of exon 3
gtgagcccccccggcccccgtcgctcattcaattcatggcggcgtctcgaccagtgttactgactgtccctccgcgtgtcggcgcgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
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gtatgtcctcatcaaaatca--aatgatttaaatgaagaaa-------aaacaatgtgactta--aaccggttgtaacttactggtttg--tagGCGGAGGGTGTGACACATTCCGGTCCAACCAAGCTTGTGTTGTACTTTACCGGAGCCACCAACATCCTCTATACCTTCGGTGGACACGCTGTGACCGTMapped 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|87156542|gb|DY401331.1|DY401331EST: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAG GTCCCAGGCGTCACCCACTCGGGCCCCAGCAAGCTCGTGCCCTACTTCACC
genomic: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
EST:
gi|26559840|gb|CA832075.1|CA832075EST: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAG GTCCCAGGCGTCACCCACTCGGGCCCCAGCAAGCTCGTGCCCTACTTCACC
genomic: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
EST:
gi|78087017|gb|DV515410.1|DV515410EST: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAG GTCCCAGGCGTCACCCACTCTGGCCCCAGTCA-GCTCGTGCCCTACTTCAC
genomic: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAG-CAAGCTCGTGCCCTACTTCAC
EST:
gi|91870569|gb|EB400953.1|EB400953EST: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAG GTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
genomic: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
EST:
gi|91871140|gb|EB401266.1|EB401266EST: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAG GTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
genomic: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
EST:
gi|22819244|gb|BU499334.1|BU499334EST: CGCGGCCGTCCACGGCCAG GTCCCAGGCGTCACCCACTCGGGCCCCAGCAAGCTCGTGCCCTACTTCACC
genomic: CGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
EST:
gi|211191277|gb|FL124541.1|FL124541EST: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAG GTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
genomic: CCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACC
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:
43 (upstream exon),
45 (downstream exon)
Score:
11CCCCTCGTACCACAACTACCGCGTCTGGTCCTTCCTCGGCCTCGGCATGACCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
Block sizes:
24 (upstream exon),
26 (downstream exon)
Score:
1CCCCTCGTACCACAACTACCGCGTCTGGTCCTTCCTCGGCCTCGGCATGACCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
Block sizes:
43 (upstream exon),
47 (downstream exon)
Score:
13CCCCTCGTACCACAACTACCGCGTCTGGTCCTTCCTCGGCCTCGGCATGACCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
Block sizes:
43 (upstream exon),
47 (downstream exon)
Score:
8CCCCTCGTACCACAACTACCGCGTCTGGTCCTTCCTCGGCCTCGGCATGACCACCTACACCGCCTGGTACCTCACCATCGCCGCGGCCGTCCACGGCCAGgtgagccccc ... cgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cggcgtctcgaccagtgttactgactgtccctccgcgtgtcggcgcgccggacagGTCCCAGGCGTCACCCACTCTGGCCCCAGCAAGCTCGTGCCCTACTTCACCGGCGCCACCAACATCCTCTACACCTTCGGCGGCCACGCGATCACTGT
tactgac putative branch site (score: 8)