Sequence
atgc intronic sequence ATGC exonic sequence...cattcataaactgttcaatattttgctttgctttttttagggctgttaaccagggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os11g34300.2 (Oryza sativa), 3'ss of exon 6
-------cattcataaactgttcaatattttgctttgctttttttagggctgttaaccagggttgattttgatagttaagcgctaagtgtggttttat--atttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
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tcagctatatttggcaagcatgtggtagatcattttatctatc---aagttgtt--ttgtggtatatttgtaaacataa-tgacaactctgccctggttgatccagGAGAAAGAAAGAAAATCATCTGAGAGTCTCTTCATGTCACATTTTCCTTCAACGCTAAAAAAGCAACTTGTTGATGATTGGGAGTTTGTCACGCAGCTGG---
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os04g01130.1 (Oryza sativa), 3'ss of exon 5
-cattcataaactgttcaatattttgctttgctttttttagggct-gttaaccagggttgattttgatagttaagcgctaagtgtg--gttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
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tcagctatat-ttggcaatcatatggtagaacattttatctatcaagttttcttgtgacatatttgtaaacatagtgacaactctgccctgtttgatccagGAGAAAGAAAGAAAATCATCTGAGAGTCTCTTCATGTCACATTTTCCTTCAACACTAAAAAAACAACTTGTTGATGATTGGGAGTTTGTCACGCAGCTGG---
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G484880_T05 (Zea mays), 3'ss of exon 6
cattcataaactgttcaatattttgctttgctttttttagggctgttaacca--gggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
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----------------------------------------actaacaaaccactgtgcttatcttg-taacatattaattactatctctgaagattcaggacaaggaaaaaagatcatcacatagtctactagtgttgcagTTTCCTTTGCCACTGAAGAAGCAACTTGTGGATGATTGGGAGTTTGTTACGCAGATGG---
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G484880_T03 (Zea mays), 3'ss of exon 6
cattcataaactgttcaatattttgctttgctttttttagggctgttaacca--gggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA--
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----------------------------------------actaacaaaccactgtgcttatcttg-taacatattaattactatctctgaagattcaggacaaggaaaaaagatcatcacatagtctactagtgttgcagTTTCCTTTGCCACTGAAGAAGCAACTTGTGGATGATTGGGAGTTTGTTACGCAGATGGGTAAG
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G484880_T02 (Zea mays), 3'ss of exon 6
cattcataaactgttcaatattttgctttgctttttttagggct--gttaacca--gggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
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caaaattcaatgttttagctatctgctttagcaaattaagagactaacaaaccactgtgcttatcttg-taacatattaattactatctctgaagattcagGACAAGGAAAAAAGATCATCACATAGTCTACTAGTGTTGCAGTTTCCTTTGCCACTGAAGAAGCAACTTGTGGATGATTGGGAGTTTGTTACGCAGATGG---
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G484880_T01 (Zea mays), 3'ss of exon 6
------cattcataaactgttcaatattttgctttgctttttttagggct--gttaacca--gggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
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ctgactcaaaattcaatgttttagctatctgctttagcaaattaagagactaacaaaccactgtgcttatcttg-taacatattaattactatctctgaagATTCAGGACAAGGAAAAAAGATCATCACATAGTCTACTAGTGTTGCAGTTTCCTTTGCCACTGAAGAAGCAACTTGTGGATGATTGGGAGTTTGTTACGC---------
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G18240.1 (Glycine max), 3'ss of exon 7
cattcataaactgttcaatattt----tgctttgctttttttagggctgttaaccagggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
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---tccgagtttgtttgagatttgatttgattggaatttctcatttttgcta-ctactcttttaattgaaaatattctgctaagtgtggttttttaattattagAAGGGCAGTGGGACTGTGGAAAAGCTTGTCAAGATTCAAATTCCTGCAACATTAAAGAAACAACTTGTTGATGATTGGGACTCTGTTACTCAGCAAGATA
upper sequence: Vv07s0129g01020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G21320.1 (Glycine max), 3'ss of exon 6
cattcataaactgttcaatattt----tgctttgctttttttagggctgttaaccagggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
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---tccgagtttgtttgagatttgatttgattggaatttctcagttttgaca-ctactcttttaattgaaaatattctgttaagtgtggttttttaattattagAAGGGCAGCGGGACTGTTGAAAAGCTTGTCAAGATTCAAATTCCTGCAACATTAAAGAAACAACTTGTTGATGATTGGGACTCTGTTACTCAGCAAGATAMapped 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|27755129|gb|CB035884.1|CB035884EST: TGGCTAGAGGGAAGAGGCGAAAAAGTGACTCTGGCATTGAG AAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACA
genomic: TGGCTAGAGGGAAGAGGCGAAAAAGTGACTCTGGCATTGAGgtctgctttg ... tatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACA
EST:
gi|71857480|gb|DT006535.1|DT006535EST: TGGCTAGAGGGAAGAGGCGAAAAAGTGACTCTGGCATTGAG AAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACA
genomic: TGGCTAGAGGGAAGAGGCGAAAAAGTGACTCTGGCATTGAGgtctgctttg ... tatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaccagggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
ttttatatttgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattcataaactgttcaatattttgctttgctttttttagggctgttaaccagggttgattttgatagttaagcgctaagtgtggttttatatttgttagAAGGACAATGCATCAACAGAAAAGCTTGTCAAGATCCCAATTCCAGCGACACTAAAGAAGCAACTTGTTGATGATTGGGATTTTGTTACTCAGCAGGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - cataaac
- - - - - - - - - - - -tgctttg
- - - - - - - - - - - - - - - - - - - -gggctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - gggttga