Sequence
atgc intronic sequence ATGC exonic sequence...atggtgtagtttcaggttagatataataaatttgccaagaaattgtcaagctattgaaggatttctactctcttctaacccctatgtttttgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os12g13590.1 (Oryza sativa), 3'ss of exon 8
atggtgtagtttcaggttagatat-aataaatttgccaagaaattgtcaagctattgaaggatttctactctcttctaacccctatgtttt-tgcta--tgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG
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----ccttctttctgataatttgtgagtaaaggaatgcagtatatctgtatgttttaaggattcatttttttcaacaaagttatttatgctacattaattgcagTTCAACCGCGGAACCAGTGCTATGCAACATTATGTTGCAACACGGCCAATGTTTATTGATGTGGATATTATGAGCATTGATATTCAAGTTGTTCTTGGTG
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA16G01660.1 (Glycine max), 3'ss of exon 8
--------atggtgtagtttcaggttagatat-aataaatttgccaaga----aattgtcaagctattgaaggatttctactctcttctaacccctatgtt-tttgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG
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gtaataaagttttgttgtacataattacatttgagtgcacctactaacatatcaaatgttgaatttttggtaaattagtgcaactatttaactaaattactatttgtaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G05160.1 (Glycine max), 3'ss of exon 8
-------------atggtgtagtttcaggttagatataataaatttgccaagaaattgtcaagctattgaaggatttctactctcttctaacccc-tatgtttttgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG
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gtaataaagttttgttgtacataattacatttgaatgcaccaactaacatatcaaatgctgaatttttggtaaataagtgcaactatttaacgaaattaatatttgcaatgcagTTTAACAGGGGTACAAGTGCCATGCAACATTATGTGGCTACTCGTCCAATGTTCATTGATGTGGAAATAATGAATGCAGACACTAAGCTGGTTCTTGGTG
upper sequence: Vv15s0046g02200.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G12370.1 (Arabidopsis thaliana), 3'ss of exon 9
-atggtgtagtttcaggttagatataataaatttgccaagaaattgtcaagctattgaaggatttctactctcttctaacccctatgtttttgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG
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gttaattctacataaagctgtcacagaaggaatggatgtctagttctcctcttgtacatatggttcttgatacttagtattttt-tcttcttgattttcagTTTAACAGGGGTACAAGTGCTATGCAACATTATGTGGCTACACGTCCAATGTTTATTGATGTGGAAGTCATGAATTCAGACATTAGGTTGGTTCTTGGTGMapped 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|161709184|gb|FC057959.1|FC057959EST: AGAGAAGAGAACTGTCTACCATGTCAGAATGTGCTAAGATTTTATCTCAG TTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACGCGTCCGATG
genomic: AGAGAAGAGAACTGTCTACCATGTCAGAATGTGCTAAGATTTTATCTCAGgttatatatg ... tgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaagctattgaaggatttctactctcttctaacccctatgtttttgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG
ttctaac putative branch site (score: 1)
tttttgct putative PPT
tatgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atggtgtagtttcaggttagatataataaatttgccaagaaattgtcaagctattgaaggatttctactctcttctaacccctatgtttttgctatgcagTTTAACAGGGGCACCAGTGCAATGCAGCATTATGTGGCAACACGTCCAATGTTTATTGATGTGGAGGTCATGAATGCAGATACCAGATTGGTTCTTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
-tggtgta
- - - - - - - - - - - - aataaat
- - - - - - - - - - - - - - - - - ccaagaa
- - - - - - - - - - - - - - - - - - - - - - -tcaagct