Sequence
atgc intronic sequence ATGC exonic sequenceCCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: LOC_Os03g20310.4 (Oryza sativa), 5'ss of exon 8
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaac--ttttcagatacctccaaccc-tggcaaac-atttag-----ttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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CCTTGGTCCATCAGGATCTTCAGGGAACGTGGCAAACTACATGGGTCAAATGGCTATGGCCATGGGCAAACTTGGGACCCTTGAGAATTTCCTCCGTCAGgtaagcgtctttcaaaatcatgtggcatatttcaaactgtttcgaaattttctgttatctctgattctggcaagcat---gcactcttgttatt-gctgtaaca------------------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA20G39050.1 (Glycine max), 5'ss of exon 11
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacatttt---ctctacttttaaga-aatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGGTTCATTAAGCAGgtaaacttttctta---ctcacatgtacgcgatcagtttggttcatttttctcaaagaaaatgctctttcatacagcatttcatggcagattattgatatcaaacatcactattaaaataacttagctctgttcatttttgtggtggtcatttgaaag-------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA03G28400.1 (Glycine max), 5'ss of exon 5
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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GCCCAGCTCATCAGGCTCCCCGGGAAATGTGGCAAATAACATGGGTCAAATAACTATGGCCATGGGAAAGCTTGGTACACTTGAGGGGTTTCTTCTCCAGgtacgctcattttccgg-tctaattctgtt---ttctcaacttccatctttttgaaataaagagaactcaggaagctttg--aattaactgagtttaatttatttg-------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA19G31050.2 (Glycine max), 5'ss of exon 9
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttg--attcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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ACCCAGCACATCAGGCTCCTCGGGAAATGTGGCAAGTTACATGGGGCAAATGGCTATGGCCATGGGAAAGCTTGGTACTCTTGATGGGTTTCTTCGCCAGgtacgctcattttccgg-tctaattctgtt---ttctcaacttccatctttttgaaataaagagataaagagaactcaggaagcttagaattaagtgagttaaa-----------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA10G44270.1 (Glycine max), 5'ss of exon 9
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgtt-cctagctctgaagacttttggtgttctattatcgttag
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ACTTGGCTCCTCTGGTTCATCAGGCAATGTGGCAAATTACATGGGTCAAATGGCTATGGCCATGGGTAAACTAGGGACACTTGAGGGATTCATTAAGCAGgtatgcttttct--tactcacat-----gtgtgcgatcagtttggtacatatt-----------tctcaaagaaa--atgctctttcatacagcatttcatggcagattattgataacaaac----atcactattaaaataacttggctctgtttatttttgtggtcatttgaaag----
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA03G28320.1 (Glycine max), 5'ss of exon 11
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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GCCCAGCTCATCAGGCTCCTCGGGAAATGTGGCAAATTACATGGGGCAAATGGCTATGGCCATGGGAAAGCTTGGTACACTTGAGGGGTTTCTTCACCAGgtacgctcattttccgg-tctaattctgtt---ttctcaacttccatctttttgaaataaagagaactcaggaagctttg--aattatctgagtttaatttatatg-------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: GLYMA15G37220.1 (Glycine max), 5'ss of exon 7
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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ACCTGCCTCATCTGGTTCATCAGGGAATGTGGCAAATTACATGGGTCAAATGGCCATGGCCATGGGTAAGCTAGGGACACTTGAAGGGTTCATTCAACAGgtacttttttc-----tttgttgcacttgtatacaaatagttt-gctacattggtgaataagtg----aagaaga----atcttttagtccagccttgatttcctaatattatt-----------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: Vv13s0084g00660.t01 (Vitis vinifera), 5'ss of exon 11
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagat-----acctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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TCTTGGCTCTTCTGGTTCATCTGGAAATGTGGCAAACTATATGGGTCAAATGGCCATGGCCATGGGAAAGCTGGGGACTCTTGAGGGGTTTATTCGTCAGgtattccttctaaagttttgattttctttcctgacaataagaataaaatcttgatcatattatggtctgtttatgatcaaccagaaagttagga--aatgga----------------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctc--caaccctggcaaacatttagttttgt---tgtttctgttgttgactgtcataggga-----gatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcct-agctctgaagacttttggtgttctattatcgttag
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TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtaca-gtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacag
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: EFJ18699 (Selaginella moellendorffii), 5'ss of exon 2
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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TGCCGGCTCTCTGGGAAACTCCCCCAACGTAGCGAACTACATGGGACAAATGGCCATGGCAATGGGAAAGCTCGGAACTCTCGAGAACTTTGTTCGCCAGgtaacgcgagccgcgatctttctttctcgctgataatt--ctttggcgcag--------------------------------------------------------------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: EFJ22847 (Selaginella moellendorffii), 5'ss of exon 5
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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CTCGGGATCGCTGGGGGCCTCGTCCAACGTCGCAAACTACATGGGACAGATGGCTATGGCCATGGGGAAGCTCGGCACTCTGGAAAACTTTGTTCGTCAGgtaaa---gccaaactctttcttcttcttttttcatttccagcagtttttcttggtcttgctctccataatgaaagt-tctgccttagttttccacagcttttt---------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: EFJ28227 (Selaginella moellendorffii), 5'ss of exon 7
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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GACTGGCTCCTTGGGCGCTGCGTCGAATGTCGCCAACTATATGGGACAAATGGCGATGGCGATGGGAAAGCTGGGAACGCTCGAGAACTTTGTTCGCCAGgtga---tgtgatgtatctgtggtttca-cgattgtt--gtctcaactttccttctaccag----------------------------------------------------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: EFJ30797 (Selaginella moellendorffii), 5'ss of exon 6
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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CTCGGGATCGCTGGGGGCCTCGTCCAACGTCGCAAACTACATGGGACAGATGGCTATGGCCATGGGGAAGCTCGGCACTCTGGAAAACTTTGTTCGTCAGgtaaa---gccaaactctttcttcttcttttctcttttccagcagtttttcttggtcttgctctccataatgaaagttttgc-cttagttttccacagcttttt---------------------------------------------------------------------------
upper sequence: GRMZM2G056099_T01 (Zea mays), 5'ss of exon 9
lower sequence: EFJ29724 (Selaginella moellendorffii), 5'ss of exon 7
CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaacttttcagatacctccaaccctggcaaacatttagttttgttgtttctgttgttgactgtcatagggagatcatgtcatttgattcgatacattttctctacttttaagaaatatatgtatgtagctcttggtgttcctagctctgaagacttttggtgttctattatcgttag
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GACTGGCTCCTTGGGCGCTGCGTCGAATGTCGCCAACTATATGGGACAAATGGCGATGGCGATGGGAAAGCTGGGAACGCTCGAGAACTTTGTTCGCCAGgtga---tgtgatgtatctgtggtttcacca---ttgttatctcaactttccttctaccag----------------------------------------------------------------------------------------------------------------------Mapped 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|32801942|gb|CD954178.1|CD954178EST: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAG GCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
genomic: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
EST:
gi|32794757|gb|CD946993.1|CD946993EST: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAG GCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
genomic: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
EST:
gi|32824133|gb|CD963855.1|CD963855EST: GGCTATGGCCATGGGAAAACTTGGCACACCTCGAGAATTTCCTTCGCCAG GCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
genomic: GGCTATGGCCATGGGAAAACTTGGCACA-CTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
EST:
gi|50323432|gb|CO518558.1|CO518558EST: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAG GATGACAATCTTCGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
genomic: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
EST:
gi|67014815|gb|CO443564.1|CO443564EST: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAG GCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
genomic: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
EST:
gi|78116763|gb|DV535150.1|DV535150EST: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAG GCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
genomic: TGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACA
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:
46 (upstream exon),
49 (downstream exon)
Score:
43CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACAATCCGACAAGCTGCTCGTGCGCTTCTTGCAATCCATGACTACTTTTCAC
Block sizes:
46 (upstream exon),
49 (downstream exon)
Score:
154CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACAATCCGACAAGCTGCTCGTGCGCTTCTTGCAATCCATGACTACTTTTCAC
Block sizes:
47 (upstream exon),
49 (downstream exon)
Score:
131CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACAATCCGACAAGCTGCTCGTGCGCTTCTTGCAATCCATGACTACTTTTCAC
Block sizes:
46 (upstream exon),
49 (downstream exon)
Score:
32CCTTGGTCCATCAGGATCTTCTGGAAACGTGGCAAACTATATGGGTCAAATGGCTATGGCCATGGGAAAACTTGGCACACTCGAGAATTTCCTTCGCCAGgtaaactttt ... ttatcgttagGCTGACAATCTACGACAGCAGACCTTACATCAGATGCAACGTATCCTGACAATCCGACAAGCTGCTCGTGCGCTTCTTGCAATCCATGACTACTTTTCAC