Sequence
atgc intronic sequence ATGC exonic sequence...tcattccatgtggggcctgttagatcaaagatgtatgtgtgggtgcatgtatatgttttatttttatttttttttcatttttttgtttttggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTCACATCTGATGCTGTGGTGGTTGACATCAAGGAGCCTGAACCCATTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 3'ss of exon 13
tcat-tccatgtggggcctgttagatcaaagatgtatgtgtgggtgcatg-tatatgttttatttttatttttttttcatttttttgtttttg-gaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTCACATCTGATGCTGTGGTGGTTGACATCAAGGAGCCTGAACCCATTCCTG
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ggatatggattttctttccttgcaatcaaacaaggatgttt---tccaccctattttttatattagtattttgagtccataaagctaacgttgtgtgaaacagGTGGTGAGATGTTGCTTGGAGCATGCTGCGTCGGTGGCGAAAACATTCATCACATCAGATGCTGTTGTGGTGGACATCAAGGAGCCTGAGAAAGCAGCTG
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 13
--tcattc-catgtggggcctgttagatcaaagatgtatgtgtgggtgcatgtata-tgttttatttttatttttttttcatttttttgtttttggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTCACATCTGATGCTGTGGTGGTTGACATCAAGGAGCCTGAACCCATTCCTG
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catggttgacacactacgattgttgattcccttttccctaccatgcttcatgagaactgcgatgagctaaagactat---gctttcctgatgatgggcaa-cagGTGGTGAGATGTTGTCTTGAGCATGCTGCGTCGGTGGCCAAGACATTCCTCACATCGGATGTCGTCGTCGTCGAGATCAAGGAGCCTGAGCCTGCGCCCG
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G095252_T02 (Zea mays), 3'ss of exon 7
tcattccatgtggggcctgttagatcaaagatgtatgtgtgggtgcatgtat-atgttttattttt------atttttttttcatttttttgtttttggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTCACATCTGATGCTGTGGTGGTTGACATCAAGGAGCCTGAACCCATTCCTG
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---tctttggtaaattctctttga--gaggaagcaagacctggttggtgtttgatgtttcatttcctggaacaaaacctgaaaactgcgacggacttgtctg--cagGTGGTGAGATGCTGTTTGGAGCATGCCGCGTCGGTGGCCAAGACCTTCCTGACATCTGATGTTGTGGTCGTCGATATTAAGGAGCCAGAGTCTGCGCCCC
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G083716_T03 (Zea mays), 3'ss of exon 12
tcattccatgtggggcctgttagatcaaagatgtatgtg-tgggtgcatgtatatgttttattttt-atttttttttcatttttttgtttttggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTCACATCTGATGCTGTGGTGGTTGACATCAAGGAGCCTGAACCCATTCCTG
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-agtccttggtaacttgtcttcgataggagccagacctgactgatgtttg-atatttcttttcctggagcaaaacctcaaagctgcgatgaactgtctgtagGTGGTGAGATGCTGCTTGGAGCACGCCGCGTCGGTGGCCAAGACCTTCCTGACATCAGATGTTGTGGTCGTCGATATCAAGGAGCCGGAGGCTGCACCTGMapped 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|110363342|gb|EC926920.1|EC926920EST: CTGGAAAATACGAGGATTTGATGGCTGCTGGTATAATTGATCCCACGAAA GTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTC
genomic: CTGGAAAATACGAGGATTTGATGGCTGCTGGTATAATTGATCCCACGAAAgtaagttttt ... ggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTC
EST:
gi|77586832|gb|DV222559.1|DV222559EST: CTGGAAAATACGAGGATTTGATGGCTGCCGGTATAATTGATCCCACGAAA GTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTC
genomic: CTGGAAAATACGAGGATTTGATGGCTGCTGGTATAATTGATCCCACGAAAgtaagttttt ... ggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtatatgttttatttttatttttttttcatttttttgtttttggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTCACATCTGATGCTGTGGTGGTTGACATCAAGGAGCCTGAACCCATTCCTG
ttttatttttattttt CT-rich tract
atatgttttattttta TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcattccatgtggggcctgttagatcaaagatgtatgtgtgggtgcatgtatatgttttatttttatttttttttcatttttttgtttttggaaaatcagGTGGTGAGATGTTGTTTGGAGCATGCAGCTTCGGTTGCAAGAACCTTCCTCACATCTGATGCTGTGGTGGTTGACATCAAGGAGCCTGAACCCATTCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
tcattcc
- - - - tgtgggg
- - - - - - - -cctgtta
- - - - - - - - - - - -atcaaaga
- - - - - - - - - - - - - - - - - - gtgtggg
- - - - - - - - - - - - - - - - - - - - - - gcatgta