Sequence
atgc intronic sequence ATGC exonic sequencegtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 10
gtac-ttgagagttcctttttcttgtggtttcttggagcatgcttat--------tggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gtacattgcaaatctgtttagatttcatcttcttctatcgctcctatgttgcttatcgtatagttgcctgataagtaattcctatgaaaatgtagTTGTCGAACAAATCTCTGGGAGGGACCACATCCTAAATCATTTAAGCATCCCCGCTGCTTGCTTCACTCATCCAGAGATTAGTATGGTTGGGCTTACAGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA09G04270.1 (Glycine max), 3'ss of exon 5
----gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgac-ttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gtaagaagcaagtaatgtaattttgctactaatatttgagtcat--ttgct--tccattcacttaatgaaaatattgttgttggaa---agTGGTTGAACAAGTCACTGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACTGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttat-tggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gtaagtggtaactgatgtaactt-----ttccaaaatttagtttatgcagcaatatcatttgatgaaaaaat--tgtctaa---cagTGGTTGAACAAGTCACTGGAAAAGATCACGTGCTCAATCATTTAAGCATCCCAGCTGCTTGTTTCACTCATCCTGAACTTAGCATGGTTGGATTAACAGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA15G15310.1 (Glycine max), 3'ss of exon 10
----gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gtaagaagcaggtaatgtaattttgctactaatttttgagtcat--ttgct--tccatttacttaatgaaaagat--tgttgga---tagTGGTTGAACAAGTGACCGGAAGAGATCACGTGCTCAATCATTTAAGCATACCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA07G37050.1 (Glycine max), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtact--tgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gtaagtggtaactcatgtaattt----tcccaaaaattttagtttttgctgcaatatcatttgatgaaaaaat--tgtctaa---cagTGGTTGAACAAGTCACTGGAAGAGATCTCGTGCTCAATCATTTAAGCATCCCAGCTGCTTGTTTCACTCATCCTGAAATCAGCATGGTTGGATTGACAGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 10
--------------------------gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgta---cttgtctgatgttgacttcctattcaaatg---tagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gtaaatggttttatcaatatttcactccaaatgcatctttcttttgtttttccttttctacactgaatacgttagattgacctttattaaactctatgcatctacttgtgttggctagTGGTGGAGCAAGTCACAGGTAGAGATCATGTGCTTAATCATCTTAGCATCCCAGCTGCTTGTTTTACTCATCCTGAAATAAGTATGGTGGGATTGACAGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv14s0060g01330.t01 (Vitis vinifera), 3'ss of exon 10
----gtac-ttgagagtt-cctttttcttgtggtttcttggagcatgcttattggt----gtacttgtctgatgt-tgacttcctattca--aatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gtaattaccttgtttgttgccactctctctctactacatggtttttgtcattcagttttaatatctacttgaaacctgacttttcttttgtcgacatagTTGTTGAACAAATTAGTGGAAAGGACAATGTGCTGAATCATTTGAGCATCCCAGCAGCGTGTTTCACCCATCCTGAGATCAGTATGGTGGGGCTGACAGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 10
----gtacttgagagttcct-ttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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gttagtggtaactacctcatattttgctgttttacctttaaaaatgctacttaaaccatct-tcattttttgcttggctcttgtgatgcagTTGTTGAGCAAGTTACCGGAAAGGATCATGTGCTCAATCATTTGAGCATCCCAGCAGCTTGTTTCACTCATCCAGAAATCAGTATGGTTGGATTGACTGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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-----------------------gtaatctcgagagagacatgttttgtgtgatgtgaccgtgatcgtgtctcttt-----tgcagTTATTGAGAGACTTGCTGGAAACGACAATGTCCTAAACCATTTAAGCATACCAGCCGCTTGCTTCACACATCCAGAGATAAGCATGACTGGGATGACTGA
upper sequence: GRMZM2G152958_T02 (Zea mays), 3'ss of exon 10
lower sequence: EFJ16882 (Selaginella moellendorffii), 3'ss of exon 10
gtacttgagagttcctttttcttgtggtttcttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
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-----------------------gtaatctcgagagaaacatgttttgtatgatgtgaccgtgatcgtgtctcttt-----tgcagTTATTGAGAGACTTGCTGGAAACGACAATGTCCTAAACCATTTAAGCATACCAGCAGCTTGCTTCACACATCCAGAGATAAGCATGACTGGCATGACTGAMapped 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|32944152|gb|CF048971.1|CF048971EST: CAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAG TTGTTGAACAAATATCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
genomic: CAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
EST:
gi|67029833|gb|CO458582.1|CO458582EST: AATGGCAAGCTCATGTCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAG TTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
genomic: AATGGCAAGCTCATG-CTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
EST:
gi|31354606|gb|CD438963.1|CD438963EST: CAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAG TTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
genomic: CAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
EST:
gi|78075765|gb|DV504199.1|DV504199EST: GGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAG TTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
genomic: GGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
EST:
gi|31353176|gb|CD437533.1|CD437533EST: CAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAG TTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
genomic: CAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCC
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:
129GTACCCAATTTATATTGCATTGGAGATGCCAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
77GTACCCAATTTATATTGCATTGGAGATGCCAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
Block sizes:
48 (upstream exon),
49 (downstream exon)
Score:
105GTACCCAATTTATATTGCATTGGAGATGCCAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
Block sizes:
47 (upstream exon),
48 (downstream exon)
Score:
189GTACCCAATTTATATTGCATTGGAGATGCCAATGGCAAGCTCATGCTTGCCCATGCTGCCAGTGCACAAGGAATTTCAGgtacttgaga ... tcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggagcatgcttattggtgtacttgtctgatgttgacttcctattcaaatgtagTTGTTGAACAAATCTCTGGAAAGGATCACATCCTAAATCATTTAAGCATCCCAGCAGCATGTTTCACCCATCCAGAGATTAGTATGGTTGGATTGACAGA
tgttgac putative branch site (score: 189)
cttcctattc CT-rich tract
tattcaaat TA-rich tract