Sequence
atgc intronic sequence ATGC exonic sequencegtcagaatcacagtagtttgtggttttctattgttggtctttgcgttatttgcattattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os11g25920.1 (Oryza sativa), 3'ss of exon 5
gtcagaatcacagtagtttgtggttttctattgttggtctttgcgttatttgcattattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgacc--agACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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---------------gcatgcacttctgttcacctagatcttttac-atgctcgtcttagtttgtgattgatatttattagtgatgctaaacttttgcttaatttgcttgtagACCATAGCAGTGATCCAAGCTGGCCATGGCCTTCTTCAGCTTGGCTCTTGCAAGATC
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G35490.2 (Glycine max), 3'ss of exon 4
------gtcagaatcacagtagtttgtggttttctattgttggtctttgcgttatttgcattattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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gtcagtaacagaatcattgttagctttgtttggcttttgttattattggtcttcatgagatttctttttaagatttttcatcccaattttatttgcttttgt-tccatgatgaccagACCATAGCTGTTATTCAAGCTGGACATGGCCTTCTCCAACTTGGTTCTTGCAAGATT
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G34980.1 (Glycine max), 3'ss of exon 5
gtcagaatcacagtagtttgtggttttctattg---ttggtctttgcgttatttgcattattgcttcttttctctgtcc-cttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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gtcagtaacagaatcgttgttggttttgtttggcttttgttattattgctcttcacaagatttctttttagatttttcaacccaaatttattttcttttt--gttccatgaccagACCATAGCTGTTATTCAAGCTGGACATGGTCTTCTCCAACTTGGTTCTTGCAAGATT
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G27400.1 (Glycine max), 3'ss of exon 5
gtcagaatcacagt-agtttgtggttttctattgttggtct--------ttgcgttatttgcattattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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gtgagggacaaaatgaattaacagcatgctattattggtctcagaaagtttttttaatgtactttaaagtttcaatcatttcattttcttttattttatttgcatttattccattgccagACAATCGCTGTGATTCAAGCTGGGCATGGCCTTCTGCAACTTGGTTCTTGCAAGATT
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G36190.1 (Glycine max), 3'ss of exon 5
gtcagaatcacagt-agtttgtggttttctattgttggtctttg--cgttatt----tgcattattgcttcttttctctgtcccttaattttgtcatctttgtat--gtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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gttagggccaaaatgaattaacagcatgctattattgatctcagaaagcttttccaatgtactttaaagtttcaatcatttcatttacttttattttatttgcatttattccattgccagACAATCGCTGTGATTCAAGCTGGGCATGGCCTTCTGCAACTTGGTTCTTGCAAGATT
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G15240.2 (Arabidopsis thaliana), 3'ss of exon 5
gtcagaatcacagtagtttgtggttttcta-ttgttggtctttgcgttatttgcattattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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------------gtaaaataaagaacactaatcatatatgagaatgttcttgactttcttgtttctcaagtc--------acctttgtaatcttttcttattgtacctacagACCATAGCTGTTATTCAAGCCGGACATGGCCTTTTACAACTTGGTTCTTGCAAGATT
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ05904 (Selaginella moellendorffii), 3'ss of exon 6
gtcagaatcacagtagtttgtggttttctattgttggtctttgcgttatttgca-ttattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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---------------------------------------------------gtagctatccggaattctctttcttcacgggctctaagaaccttgtataccatctcgc-agACCATAGCTGTGATTCAAGCTGGGCACGGACTTCTCCAACTAGGATCCTGCAAGATC
upper sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ26828 (Selaginella moellendorffii), 3'ss of exon 6
gtcagaatcacagtagtttgtggttttctattgttggtctttgcgttatttgca-ttattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
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---------------------------------------------------gtagctatccggaattctctttcttcacgggctctaagaactttgtataccatctcgc-agACCATAGCTGTGATCCAAGCTGGGCACGGACTTCTCCAACTAGGATCCTGCAAGATCMapped 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|161719944|gb|FC068689.1|FC068689EST: CTTCCTCCTGAATGGACCGATCAGTTTGAGTCAGGCATTCAG ACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGC
genomic: CTTCCTCCTGAATGGACCGATCAGTTTGAGTCAGGCATTCAGgtcagaatca ... ccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
ccttaat putative branch site (score: 4)
tgtccctt putative PPT
ttaattttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagaatcacagtagtttgtggttttctattgttggtctttgcgttatttgcattattgcttcttttctctgtcccttaattttgtcatctttgtatgtcccttgaccagACCATAGCTGTAATTCAAGCTGGCCATGGCCTTCTTCAACTCGGTTCCTGCAAGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA