Sequence
atgc intronic sequence ATGC exonic sequence...tattctaaaattcaatttatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcataagtcgaaaatctttttcctgttggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G109039_T01 (Zea mays), 3'ss of exon 6
tattctaaaattcaatt-tatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcata-agtcgaaaatctttttcctgt-tggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
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--cccagcagttccctggcaacaacttatatctcagttctctgtgtgctctccatat-tgatcttttgttcaattgaatatcttctgttgatgtcaaatgcagCACCTTGATCAGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G048045_T01 (Zea mays), 3'ss of exon 6
-tattctaaaattcaatttatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcataagtcgaaaatctttttcctgt-tggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
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agctgatggatgtgcatgtgtttacatggttaatctttctgtgtgttctccatactgatcttttgt--tcaattgattatcttctgttgatgtcatatgcagCACCTTGATCGGGAAGGTATTAGTTTTTGCTGTCGAACAACTTATGATGATAATGCTATTACAAATGCGGTTGAGATATTTAATACCTCTAG
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G40060.1 (Glycine max), 3'ss of exon 6
-----tattctaaaattcaatttatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcataagtcgaaaatctttttcctgttggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
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ctcaataatatgaattcattctcaattatgtcaacttggtttatcc-aatcaatataatttgtaatt-cttgtctgattaaatgacacgtcttgtct---tgcagTATGTAGATCGACCTGGTGTTAGCTTTTGTTCTAGAACTACTTATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G00740.3 (Glycine max), 3'ss of exon 6
-----tattctaaaattcaatttatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcataagtcgaaaatctttttcctgttggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
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ctgaataatatgaattcattctcaattatgtcaacttggtttatcc-aatcgatataatttgtaatt-cttgtctgattaaatgacacatcttgtct---tgcagTACGTAGATCGACCTGGTGTTAGCTTTTGTTCTAGAACTACTTATGATGACAATGCAATAACAAATGCTGTTGAGATTTATGATCATCCAAG
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G02070.1 (Glycine max), 3'ss of exon 6
tattctaaaattcaatttattt--atttagttgtgttttttctgaatcaatggcatatatcatcgctcataagtcgaaaatctttttcctgttggagt-----gcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
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----acaaaattggaaaaatctgaagtcatcctcaatttttctcccttgatcttgtatattgatgtgttt--gtc-aatattttcatgttgtttgaatttcctgcagTACTTAGATCGGCCAGGGGTTAGTTTTTGTACCCGAACTACATATGAGGACAATGCAATCACAAATGCTGTGGAGATTTATGAGCACCCAAG
upper sequence: Vv00s1206g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G12980.2 (Glycine max), 3'ss of exon 6
tattctaaaattcaatttatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcataagtcg---aaaatctttttcctgttggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
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-aatctgaagtcatcctcaatttttctgccttgatcttg-tatattgatg-tgtttgtcaatattttcatgttgcttgatgacacattcgtaatgtcctgcagTACTTAGACAGGCCAGGGGTTAGTTTTTGTACCCGAACTACGTATGAGGACAATGCAATCACAAATGCTGTGGAGATTTATGAGCACCCAAGMapped 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|33409772|gb|CF215399.1|CF215399EST: GAGATAGGTTGTTGATTGCCGTTGGATTTCAGGGAGAACTTATTTGTAAG TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGAC
genomic: GAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAACTTATTTGTAAGgtaaatctgt ... tggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGAC
EST:
gi|294964449|gb|GW838252.1|GW838252EST: GAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAACTTATTTGTAAG TATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGAC
genomic: GAGATAGGTTGTTGATTGCTGGAGGATTTCAGGGAGAACTTATTTGTAAGgtaaatctgt ... tggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatggcatatatcatcgctcataagtcgaaaatctttttcctgttggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
tctttttcctgtt CT-rich tract
aaaatcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattctaaaattcaatttatttatttagttgtgttttttctgaatcaatggcatatatcatcgctcataagtcgaaaatctttttcctgttggagtgcagTATTTAGATCGACCTGGAGTTTGCTTTTGTTCTCGAACAACTTATGACGACAATGCTATCACAAATGCAGTAGAGATTTATGATAGTCCCAG
- - - aaaattc
- - - - - - - - - - - - - - - - - - - - -gaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctcata