Sequence
atgc intronic sequence ATGC exonic sequencegtacttttggtttcttgagctggcttgttaataaatgtaattaaagtcagagatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 6
gtacttttggtttcttgagctggcttgttaataaatgtaattaa-agtcagagatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
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gtgcatt-gttgtgtaaagcttttctctattatgatgagataaacaaaaaaatatttccccctggaattaataacacttt-taatgatgttgagcagTGGAACTTCCGTATTGGCTTCACCCCTAAAGAGGGTTTGGTCATCTATTCTGTTGCATATGTTGATGGCAGCCGTGGACGTCGGCCGATAGCTCATAGGC
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g38010.1 (Oryza sativa), 3'ss of exon 5
---------gtacttttggtttcttgagctggcttgttaataaatgtaattaaagtcaga-gatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
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gttaactggttatcttctgtttcttgtttcaa-ttgttgagcacttgagctactattagataaaactgactcaaaaaatctcacctgttatttctattg--aacagTGGAACTTCCGTATTGGCTTTACTCCCAAAGAAGGTTTAGTTATTCATTCTGTTGCATATGTTGATGGAAACCGTGGGCGTCGACCTATCGCTCACAGGC
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os04g04950.1 (Oryza sativa), 3'ss of exon 5
gtacttttggtttcttgagctggcttgttaataaatgtaattaaagtc--agagatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
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gttaactggctatctatag-tgtttactgttttaatttaattattggcgtagtagtatctaataaaaatgattaaaaaaacat-tttctgttgaacagTGGAACTTTCGTATTGGCTTCACCCCTAAAGAAGGTTTAGTTCTTCATTCTGTTGCATATGTTGATGGAAACCGTGGCCGTCGACCTATCGCTCACAGGC
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 5
gtacttttggtttcttgagctggcttgttaataaatgtaattaaagtcagagatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
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gtaatt---gtttgttgaactgcagtgctagta-------ttaacat----aatgtcttctgaa-ataaataacacttaatggttatgg----cagTGGAACTTCCGTATTGGCTTCACCCCCAAAGAGGGTTTGGTTATCTATTCTGTTGCTTATGTTGATGGTAGCCGTGGACGTAGACCTATAGCACATAGGC
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 5
--gtacttttggtttcttga--gctggcttgttaataaatgtaattaaagtcaga-gatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
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gtagatgttaagttactatattgtttatttgtcattggaaatgtgcaaagatatttgattcattgtaactactagtcttttttctttctctt--ttaacagTGGAATTTCCGTATTGGATTCACACCCAAAGAAGGTTTGGTTATATATTCTGTTGCATATGTTGATGGTAGTCATGGACGAAGGCCTGTTGCTCATAGGC
upper sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G09290.1 (Glycine max), 3'ss of exon 4
gtacttttggtttcttgagctggcttgttaataaatgtaattaaagtcagagatgcatacta-------aacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
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--gatgatagtgtaaaaaatctttccacattctaatcaaattaatttccgaatgtccaactagttctgtaactctgtcactatgttctttgctca-ttaatagTGGAACTTTCGTATTGGATTCACTCCTAGAGAAGGTTTGGTTATATATTCGGTTGCATATATTGATGGTAGTCAAGGGCGAAGGCCTGTAGCACATAGACMapped 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|71863489|gb|DT012544.1|DT012544EST: CAGAAGGTCCAAGCTTTCGTGTACATGGGCACTATGTAGAATGGCAGAAG TGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCT
genomic: CAGAAGGTCCAAGCTTTCGTGTACATGGGCACTATGTAGAATGGCAGAAGgtacttttgg ... tggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCT
EST:
gi|71862200|gb|DT011255.1|DT011255EST: CAGAAGGTCCAAGCTTTCGTGTACATGGGCACTATGTAGAATGGCAGAAG TGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCT
genomic: CAGAAGGTCCAAGCTTTCGTGTACATGGGCACTATGTAGAATGGCAGAAGgtacttttgg ... tggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaagtcagagatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
tactaaa putative branch site (score: 1)
tgttttatcttttt putative PPT
aatgttttatcttttt 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttttggtttcttgagctggcttgttaataaatgtaattaaagtcagagatgcatactaaacactatcaatgttttatctttttggttggcagTGGAATTTCCGTATTGGTTTCACTCCCAGAGAGGGTTTGGTTATCCATTCTGTTGCATATGTTGATGGTAGTCGGGGTCGAAGACCTGTAGCTCATAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA