Sequence
atgc intronic sequence ATGC exonic sequence...cattgtgtctttggggatttaatatcttttatctagtgtaatttttcctcctctttgaatatcaattctgacatgtaagttcgaccatcctattttatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 7
--------------------------------------------------------------cattgtgtctttggggatt--taatatcttttatctagtgt----aatttttcctcctctttgaa--tatcaattctgacatgtaagttcgaccatcctat---tttatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
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gtactggtcacctgcatgagatccgtgtctaactagtataagaaatctctaccagatatttgcgttaccattataaaaattactagttcctttttttttctttcagaaattactaattcaatttggaattagaacatctgatgtatatattttcttttgttgtatgtgtgtagGGACATCAAAGGAGCTAACTTGCTTGTTGATTCTGCTGGTGTTGTTAAGCTTGCTGACTTTGGGATGGCCAAGCAC
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------cattgtgtct--ttggggatttaatatcttttatctagtgtaatttttcctcctctttgaatatcaattctgacatgtaagttcg------accatcctattt---tatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
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gtacattcaccagcttgaagtgcttcatactaacttgaactcaacctttagaatgatgcatatgcaactacttcgtttttgtttgaaaaatgattatgttttctagaattttaattcattttagatttgga-actttttgtaacatgtttatttattgtttgttctcatgtatgcatatagGGACATCAAAGGGGCTAACTTGCTTGTTGACTCTGCTGGAGTTGTTAAGCTAGCTGATTTTGGGATGGCTAAGCAT
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G20460.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------------cattgtgtctttggggatttaatatcttttatctagtgtaatttttcctcctctttgaatatcaa---ttctgacatgtaagt-tcgaccatcctattt----------tatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
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gtgcattcacaagcttgaagtgctttacactaacttgaactcaacctttagaatgatacatatgcaactacttcgtttttgttggaaaaatga-ttatgttttctagaatttttaattcattttagatttggaacattttgtcatgtgcttatttattattttttttcatgtatgcatatagGGACATCAAAGGGGCTAACTTGCTTGTTGACTCTGCTGGAGTTGTTAAGCTAGCTGATTTTGGGATGGCTAAGCAT
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G06200.1 (Glycine max), 3'ss of exon 8
----------------------------------------------cattgtg----tctttggggatttaata--tcttttatctagtg-taatttttcctcctctttgaatatcaattctgacatgtaagttcgaccatcctattt-tatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
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gtactgttcacgtgcatgagaaatatctaccagatatttgcgtaaccattataaaaattattagtttttttttcattctttcagatattactaattcaatttggaactagaacatctgatgtcattatctttttcatttgttgcatgtgtgcagGGACATCAAAGGAGCTAACTTGCTAGTTGATTCTGCTGGTGTTGTTAAGCTTGCTGACTTTGGGATGGCCAAGCAC
upper sequence: Vv00s0567g00010.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 5
cattgtgtctttggggatttaatatcttttatctagtgtaatttttcctcctctttgaatatcaattctga-catgtaagttcgaccatcctattttatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
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----gtaaagtcacaatattactgtaatcaatcttg-gtgaatattgttct------agtgttgaacctaagcatattggtttccctatttttgttatcagGGATATCAAAGGTGCTAATCTCCTTGTTGATGCTTCTGGGGTTGTCAAGCTTGCTGATTTCGGCATGGCTAAACACMapped 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|161712085|gb|FC061457.1|FC061457EST: CATATTCTTTCTGGGCTGGCTTACTTACACAGCACAAAGACAATACACAG AGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCT
genomic: CATATTCTTTCTGGGCTGGCTTACTTACACAGCACAAAGACAATACACAGgtaacaatag ... tattttatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCT
EST:
gi|110689010|gb|EE067915.1|EE067915EST: CATATTCTTTCTGGGCTGGCTTACTTACACAGCACAAAGACAATACACAG AGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCT
genomic: CATATTCTTTCTGGGCTGGCTTACTTACACAGCACAAAGACAATACACAGgtaacaatag ... tattttatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctcctctttgaatatcaattctgacatgtaagttcgaccatcctattttatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
ttctgac putative branch site (score: 2)
tcctatttt putative PPT
tttgaatatcaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattgtgtctttggggatttaatatcttttatctagtgtaatttttcctcctctttgaatatcaattctgacatgtaagttcgaccatcctattttatagAGACATCAAAGGGGCTAATTTGCTTGTTGATGCATCTGGAGTTGTTAAGCTTGCTGACTTTGGGATGTCTAAACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accatcc