Sequence
atgc intronic sequence ATGC exonic sequence...attttacttgagatgcacaaattcatattgctaaggcagtgaagagttcattcattgttgttatcgtttcatagtaacaaggttcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os06g02380.1 (Oryza sativa), 3'ss of exon 3
-attttacttgagatgcacaaattcatattgctaaggca---gtgaagagttcattcattgtt--gttatcgtttcatagtaacaaggttcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
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ttttcttattgaacaagtcaactggaggtttctggattatctgtgtaacctagttccagaatttgagcagaattttcaagtaacga--tctctgtact----gcagGTTGAACTGGAGGATCCTGTTGAAAATATTGGAGCTAAGTTGGTTAGGCAAGCAGCAGCAAAGACCAATGATTTAGCTGGAGATGGCACAACTACTTCTG
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g01280.1 (Oryza sativa), 3'ss of exon 3
---------------------------------------------------------------------------attttacttgagat---gcacaaattcata--ttgctaaggcagtgaagagttcattcattgttgttatcgtttcatagtaacaaggt---tcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
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gtatgccacgtatagtaaactgttcgtgttcttatgatgcaatcctatcattgcttaaattcagagttttctgaaaaatgactgaacatttggcataaactgtttgttttcttatgatgcaatcctatcatagcttaaattcagagttttctgaaaaatgagtgaacatttggcatgcaccagGTTGAGCTGGAGGACCCTGTTGAAAATATTGGAGCCAAATTAGTCCGGCAAGCTGCAGCCAAGACAAATGATTTGGCTGGTGATGGGACAACGACTTCTG
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G015989_T01 (Zea mays), 3'ss of exon 3
------------------attttacttgagatgcacaaattcatattgctaaggcagtgaagagttcattcattgttgttatcg--tttcatagtaa--caaggttcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
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gtgcacatctgactacaaacttaccatcgtttgttcttgctcgtactgcaaccataccct-gctctaacttcttgtggctgccgagtttcctcatatgttctgggctgtggccatgcaccagGTTGAACTTGAGGACCCTGTTGAAAATATTGGTGCTAAATTGGTCCGCCAAGCTGCTGCTAAAACAAATGACTTGGCTGGTGATGGGACAACCACTTCGG
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ33580 (Selaginella moellendorffii), 3'ss of exon 2
attttacttgagatgcacaaattcatattgctaaggcagtgaagagttcattcattgttgttatcgtttcatagtaacaaggttcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
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---------------------------------gtagagggaaaagttaaaatgcggctacaa--agtcttttgtgcttttgctctt----tgtttgcagGTGGAGCTGGAAGATGCAGTCGAGAACATTGGTGCGCGGCTTGTAAGACAAGCTGCGTCGAAAACAAATGACTTGGCTGGTGATGGAACCACCACGTCCG
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ32217 (Selaginella moellendorffii), 3'ss of exon 2
attttacttgagatgcacaaattcatattgctaaggcagtgaagagttcattcattgttgttatcgttt-catagtaacaaggttcctgaactct-tcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
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---------------------------------------------gtatgtgccttgtctttcttgttgatgctgtggtttgctgatggaaatgtattttagATTGAATTGGAAGACCCGGTTGAGAACATTGGTGTGAAACTCGTGAGGCAAGCTGCTTCTAAAACCAACGATTTGGCTGGGGATGGAACGACGACTTCCT
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ16507 (Selaginella moellendorffii), 3'ss of exon 2
attttacttgagatgcacaaattcatattgctaaggcagtgaagagttcattcattgttgttatcgttt-catagtaacaaggttcctgaactct-tcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
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---------------------------------------------gtatgtgtcttgtctttcttgttgatgctgtggtttgctgatggaaatgtattttagATTGAATTGGAAGACCCGGTTGAGAACATTGGTGTGAAACTCGTGAGGCAAGCTGCTTCTAAAACCAACGATTTGGCTGGGGATGGGACGACGACTTCCT
upper sequence: Vv09s0002g03930.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ36935 (Selaginella moellendorffii), 3'ss of exon 2
attttacttgagatgcacaaattcatattgctaaggcagtgaagagttcattcattgttgttatcgtttcata-gtaacaaggttcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
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-----------------------------------gtaggaaggaaaagataaaatgcggctacaaagtcttttgtgtttttgctctt----tgtttgcagGTGGAGCTGGAAGATGCAGTCGAGAACATTGGTGCGCGGCTTGTAAGACAAGCTGCGTCAAAAACAAATGACTTGGCTGGTGATGGAACCACCACGTCCGMapped 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|161710172|gb|FC061070.1|FC061070EST: AGTATGGGTCCCCGAAAATTGTTAATGATGGTGTTACTGTGGCAAGAGAG GTAGAGTTGGAGGACCCTGTTGAGAACA
genomic: AGTATGGGTCCCCGAAAATTGTTAATGATGGTGTTACTGTGGCAAGAGAGgtataaatta ... ctcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcattcattgttgttatcgtttcatagtaacaaggttcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
tagtaac putative branch site (score: 1)
ctcttcat putative PPT
ttgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttacttgagatgcacaaattcatattgctaaggcagtgaagagttcattcattgttgttatcgtttcatagtaacaaggttcctgaactcttcatagGTAGAGTTGGAGGACCCTGTTGAGAACATAGGTGCTAGGTTGGTGAGACAAGCTGCTTCAAAAACCAATGATTTGGCTGGTGATGGGACAACTACTTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - -cacaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttcctga