Sequence
atgc intronic sequence ATGC exonic sequence...aactttttatgtcttcaaggtgtaatatcccaataagtgggatttgtggcaaataaggtaattatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g15550.1 (Oryza sativa), 3'ss of exon 8
---aactttttatgtcttcaaggtgtaatatcccaataagtgggatttgtggcaaataaggtaat-tatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
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ctggtctgatcatgtttgacttgaaaacttcacctacattttgtattcccatttgat--ggtaatgttcttacactatctgttttgg--cattatctgttgcagGGCCTGCCCAGGAACTTGTGGAGAAGCCATTTTTTGACACAATCGCAAGAGCTTTGAGGCCTGGTGGTGTTCTTTGTAATCAGGCTGAGAGCATGTGGTT
upper sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G120578_T02 (Zea mays), 3'ss of exon 7
aactttttatgtcttcaaggtgtaatatcccaataag--tgggatttgtggcaaataaggtaattatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
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tatgatgaaaaatttgcagatttttcttgcagaaaggacttcgactcatcaaaatttcaatcaaatcttactattcttatgttgcatttggcatttgc--agGGCCTGCTCAGGAACTTGTGGAGAAGCCTTTTTTTGAGACCATCGCTAGAGCTTTGAGGCCTGGTGGTGTTCTTTGTAATCAAGCTGAGAGTATGTGGTT
upper sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G060896_T02 (Zea mays), 3'ss of exon 8
aactttttatgtcttcaaggtgtaatatcccaataagtgggatttgtggcaaataaggtaattattt--acttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
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-acgaataatttgctcatattttatttcaaaaagaattttgacctataaacttttagtcaaagactcaaatcttattttcttagttacttggcatt-tgcagGGCCTGCTCAGGAACTTGTAGAGAAGCCTTTTTTTGATACAATTGCTAGAGCTTTGAGGCCTGGAGGCGTTCTTTGTAATCAAGCTGAGAGTATGTGGTT
upper sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G047867_T01 (Zea mays), 3'ss of exon 8
aactttttatgtcttcaaggtgtaatatcccaataagtgggatttgtggcaaataaggtaattatttacttcccttgtttggtttc-ttttcctcatt-tagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
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--ctgttttttttttggaaaattaatgtgtttgtatgtttcacttaattgataccttttatttgcacactgttttaaattcttttcatactaattattacagGGCCAGCACAGGCACTCGTGGAGAAACCGTTTATTCAGACAATTGCTAGAGCTTTGAAGCCTGGTGGTGTTCTTTGTAATCTTGCTGAGAGCATGTGGCT
upper sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G41600.1 (Glycine max), 3'ss of exon 8
--aactttttatgtcttcaaggtgtaatatcccaataagtgggatttgtggcaaataaggtaattatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
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cacgctaattataccaaaagaattaagagattaagattcctctatttttggttattattattattaactaactattta--caggatcaattttgcgatttagGTCCTGCCCAGGAACTTGTTGAGAAACCTTTTTTTGATACAATAGCTAGGGCACTAAGGCCTGGCGGAGTTCTTTGTAATATGGCAGAAAGTATGTGGCT
upper sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA06G13210.3 (Glycine max), 3'ss of exon 8
aactttttatgtct---tcaaggtgtaatatcccaataagtgggatttgtggcaaataaggtaattatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
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--cttactacatgctaatcatactgaaagatgtaaagagataaagattcctcaatttttggtcattatcattaactattacaggattacttttg-taatttagGTCCTGCCCAGGAACTTGTTGAGAAGCCTTTCTTTGATACAATAGCTAGGGCATTAAGGCCCGGTGGAGTTCTTTGTAATATGGCAGAAAGTATGTGGCT
upper sequence: Vv16s0050g02670.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G53120.4 (Arabidopsis thaliana), 3'ss of exon 9
-----------------aactttttatgtcttcaagg------tgtaatatcccaataagtgggatttgtggcaaataaggtaattatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
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gtatgattcatctgcaaaactctttggatatctgagtgattcttattttgtttttctaaatcaaaact-cggttcagacttcagctacaaactctcacgttttcactctatataatcat--agGTCCTGCTCTTGCGCTTGTTGAGAAGCCTTTCTTCGAGACACTGGCTAGAGCGTTGAAGCCTGGGGGAGTTCTTTGTAACATGGCAGAAAGTATGTGGCTMapped 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|110687699|gb|EE065403.1|EE065403EST: ACCTGAAGGGAAGTATGATGCAATTATTGTTGATTCATCAGATCCTGTGG GTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAG
genomic: ACCTGAAGGGAAGTATGATGCAATTATTGTTGATTCATCAGATCCTGTGGgtatgtcctt ... cctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggcaaataaggtaattatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
tttacttcccttgttt CT-rich tract
aaataaggtaattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactttttatgtcttcaaggtgtaatatcccaataagtgggatttgtggcaaataaggtaattatttacttcccttgtttggtttcttttcctcatttagGTCCTGCTCAAGAACTTGTCGAGAGACCATTTTTTGAGACAACAGCCAGAGCTTTGCGTCCTGGTGGTGTTCTTTGTAACATGGCTGAAAGCATGTGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - -tgtcttc
- - - - - - - - - - - - - atcccaa
- - - - - - - - - - - - - - - - - - - - - - - - -caaataa