Sequence
atgc intronic sequence ATGC exonic sequence...cttgtgtaaatatgcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttatcagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g55360.2 (Oryza sativa), 3'ss of exon 8
cttgtgtaaatatgcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttatcagaa--aattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
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-ctgtttttgtttttcgtttgaattttgttttttatcatgttttccaagcaatggatgtttttggctaaagttaataagttattacatgt-attgttgacagTTCCCTTGGAAGGAAGTTGTTCTTTTGCCTGTGCAGTGGCATGCTTTAGCACTAGGTTTGTTTGCATCAATAATAGCACCTTTTGGAGGTTTCTTTGCAA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G452529_T02 (Zea mays), 3'ss of exon 8
-----cttgtgtaa-atatgcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttatcagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
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tatatttaatgtaccacatcatcattggttttgcattatctttctagagtttc-tagatgtttgat-tttgtactctgtttgaatacatcgtttcttaac----agTTCCCATGGAAAGAACTAGCTATTATGCCTGTGCAGTGGCATGCTTTAGCCCTAGGTTTATTTGCATCAATAATAGCACCATTTGGAGGATTTTTTGCGA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G062416_T02 (Zea mays), 3'ss of exon 3
cttgtgtaaatatgcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttat--cagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
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-----gtaaataagcaattcgagcctaactcaaattctcaattggaaatggttacattccatctgttgctgttgctccaattagtttatttgtactgtacagTTTCCATGGCGAGAAATTGCAATTATGCCCGTTCAATGGCATGCATTAGCTCTTGGCTTGTTTGCTTCAATAATAGCACCATTTGGTGGCTTTTTTGCAA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM5G825110_T01 (Zea mays), 3'ss of exon 8
cttgtgtaaatatgcaggtaggtttcactccctct-ttttaacctttaatttatgcatggtgtttatcagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
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-atgtttgattgtgtactctatcatcattggttttgcgttatctctttagagtttctagatgtttgatttgtactctgtttgattacgtgtctcttaacagTTCCCATGGAAAGATCTAGCCATTATGCCTGTGCAGTGGCATGCTTTAGCCCTAGGTTTATTTGCGTCAATAATAGCACCATTCGGAGGATTTTTTGCGA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA02G46440.1 (Glycine max), 3'ss of exon 8
cttgtgtaaatat-gcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttatcag---aaaattaa---ctatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
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-----gtaagtgccaaaaaaatatcctaataattacaaagagatagcagttttgccactaaacttaagaatttaagtctaagtttttcattttgcaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGGATGCCTTGTGGATGGGACTATTTGCATCAATTATAGCACCATTTGGAGGTTTTTTTGCTA
upper sequence: Vv19s0090g01220.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA14G02210.1 (Glycine max), 3'ss of exon 6
--------------------cttgtgtaaata--tgcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttatcagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
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gtaagtaccaaaaaaataaatctatcctaataattacaaagagatggcagttttgccact-aagcttaagattaagaat----ttaagactaaagtt--ttttattttggaacattttgtagCTTCCTTGGAAAGAGATAGCAGTTTTGCCAGTACAGTGGCATGCCTTGTGGATGGGACTATTTGCGTCAATAATAGCACCATTTGGAGGTTTTTTTGCTAMapped 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|110424073|gb|EC990426.1|EC990426EST: CACTTTTTAAGCCAGAGCATTATCCTTTACTAGAATGGGTTCCACAATGG TTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGC
genomic: CACTTTTTAAGCCAGAGCATTATCCTTTACTAGAATGGGTTCCACAATGGgtgagtcagt ... taacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatttatgcatggtgtttatcagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
tgataac putative branch site (score: 2)
tttatcagaaaattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgtgtaaatatgcaggtaggtttcactccctctttttaacctttaatttatgcatggtgtttatcagaaaattaactatgtttggtgataacttgcagTTTCCTTGGAAAGAGATTTCAGTTTTGCCGGTGCAGTGGCATGCTTTATGCTTGGGTTTGTTTGCATCAATTATAGCACCCTTTGGTGGCTTTTTTGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - -gcaggta
- - - - - - - - - - - - -cactccc
- - - - - - - - - - - - - - - - - - - - - - - - - - -gcatggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtttgg