Sequence
atgc intronic sequence ATGC exonic sequencegtaatatgtgcagtgcaagtattttctgcatttgctactgccgctattgaatgccatttcttcctttttttgtagattgccttttcttctctctgatagtggaatatattgtttcagagcaagttttgcattcttatgacaaatcattttattgctctgatggtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G014069_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os08g44530.1 (Oryza sativa), 3'ss of exon 10
gtaatatgtgcagtgcaagtattttctgcatttgctactgccgctattgaatgccatttcttcctttttttgtagattgccttttcttctctctgatagtggaatatattgtttca--gagcaagttttgcat--tcttatgacaaatcattttattgctctgatggtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
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--------------------------------------------------------------------------tatttccttttacgctct-tgacaagggaatgcattagttcactgggacaaccatgcatagtcttgttctgaattactctgctggcatg-caatcacaacagGGGAAGGTAGTAGTGATACGAGGAGAAGGACCGAAAGGTGGACCAGGGATGCCTGAAATGCTGACTCCAACTAGTGCAATAATGGGTGCTGGTCTTGGGA
upper sequence: GRMZM2G014069_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA13G27810.1 (Glycine max), 3'ss of exon 10
gtaatatgtgcagtgcaagtattttctgcatttgctactgccgctattgaatgccatttcttcctttttttgtagattgccttttcttctctctgatagtggaatatattgtttcagagcaagttttgcattcttatgacaaatcattttattgctctgatggtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
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-----------------------------------------------------------------------caattttgctgtagtatttgtttggtt-tgacacagatataaccacagtaggtgatggctaaaatggaaatatgatttcttttgtattttcattttttcagGGGAAAGTGGTTGTAATCAGGGGAGAGGGACCCAAGGGTGGTCCGGGAATGCCTGAGATGTTAACACCAACAAGTGCAATAATGGGTGCAGGTCTTGGAA
upper sequence: GRMZM2G014069_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT3G23940.1 (Arabidopsis thaliana), 3'ss of exon 10
gtaatatgtgcagtgcaagtattttctgcatttgctactgccgctattgaatgccatttcttcctttttttgtagattgccttttcttctctctgatagtggaatatattgtttcagagcaagttttgcattcttatgacaaatcattttattgctctgatggtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
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--------------------------------------------------------------------------------gtaatttcctttctgata-tgaagttcatc--tcaggagctggttatatatcttttatctgatgaaatgtatcgt-------gtttc---agGGAACTGTGGTTGTTATCAGAGGAGAGGGGCCTAAAGGAGGTCCAGGTATGCCTGAGATGTTGACACCGACAAGTGCAATAATGGGTGCCGGTCTTGGAA
upper sequence: GRMZM2G014069_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv05s0051g00830.t01 (Vitis vinifera), 3'ss of exon 10
gtaatatgtgcagtgcaagtattttctgcatttgctactgccgctattgaatgccatttcttcctttttttgtagattgccttttcttctctctgatagtggaatatattgtttcagagcaagttttgcattcttatgacaaatcattttattgctctgatggtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
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----------------------------------------------------------tcatattttttctat------tttatgtgtctcactgataggatggtgtataatt---gattca---tcaaaatgggatatctaatt-ttttgcttttctgtta-tactttcagGGGAAAGTAGTTATTATTAGAGGAGAGGGACCCAAGGGGGGGCCAGGAATGCCTGAAATGTTGACTCCAACAAGCGCAATAATGGGAGCAGGTCTTGGGAMapped 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|71311152|gb|DR791882.1|DR791882EST: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAG GGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
genomic: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
EST:
gi|33095072|gb|CF055066.1|CF055066EST: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAG GGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
genomic: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
EST:
gi|45568073|gb|CK985888.1|CK985888EST: AGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAG GGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
genomic: AGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
EST:
gi|74234928|gb|DT642842.1|DT642842EST: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAG GGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
genomic: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
EST:
gi|211085449|gb|FL413518.1|FL413518EST: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAG GGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
genomic: GTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATG
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),
48 (downstream exon)
Score:
189GTCCTGCATTAGTTTTTGAGGGTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
Block sizes:
45 (upstream exon),
48 (downstream exon)
Score:
105GTCCTGCATTAGTTTTTGAGGGTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
116GTCCTGCATTAGTTTTTGAGGGTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
Block sizes:
49 (upstream exon),
48 (downstream exon)
Score:
77GTCCTGCATTAGTTTTTGAGGGTGAAGAGTCCATGATTACAGCTATCTCAGAAAACCCAGCAAATTTCAAGgtaatatgtg ... gtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcaagttttgcattcttatgacaaatcattttattgctctgatggtttcaacagGGAAAGGTAGTAGTGATCCGAGGAGAAGGACCAAAAGGCGGGCCAGGGATGCCCGAAATGTTGACTCCAACAAGCGCAATAATGGGTGCTGGTCTTGGAA
ctctgat putative branch site (score: 77)
acaaatcattttatt TA-rich tract