Sequence
atgc intronic sequence ATGC exonic sequence...gtgtgttacatgccttattcctagaaattctgattgatttgatgctcaaatttgttgttttggtttcttttccacttggttccttaaaatgaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATTTCCAGCAGCACTGGCTCTGACAGCAGATCCTATTGCTTCTCTGGTTGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G03930.1 (Glycine max), 3'ss of exon 1
-------gtgtgttacatgccttattcctagaaattctgattgatt-tgatgctcaaatttgttgttttggtttcttttccacttggttccttaaaatgaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATTTCCAGCAGCACTGGCTCTGACAGCAGATCCTATTGCTTCTCTGGTTGAC
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gtttattttaagttcaatttttgttttcttccagcagttattgatcacgttcttctgatgatgtacctagatttaactcttgatt--ttcctctcactg------cagACTAGTTTTTAAAGCAGACAGTCTTGGTCGGGAAATTTTGTCAATTGCATTGCCTGCAGCAATGGCTTTGACAGCTGATCCTATTGCTTCACTGGTTGAC
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 1
-------gtgtgttacatgccttattcctagaaattctgattgatt-tgatgctcaaatttgttgttttggtttcttttccacttggttccttaaaatgaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATTTCCAGCAGCACTGGCTCTGACAGCAGATCCTATTGCTTCTCTGGTTGAC
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gtttattttgagttcaatttttattttcttccagcagttattgatcacgttattctgatgtagtacctagatttaactcttgattttcttcccacta--------cagACTAGTTTTTAAAGCAGACAGTCTTGGTCGGGAAATTTTGTCAATTGCATTGCCTGCAGCAATGGCTTTGACAGCTGATCCTATTGCTTCACTAGTTGAC
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G51340.2 (Arabidopsis thaliana), 3'ss of exon 1
gtgtgttacatgccttattcctagaaattctgattgatttgatgctcaaatttgttgttttggtttcttttccacttggttccttaaaatgaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATTTCCAGCAGCACTGGCTCTGACAGCAGATCCTATTGCTTCTCTGGTTGAC
|| | || || | ||||||| |||| | ||| | | || ||| | | | || | ||| || ||||| | | ||| | |||||||| ||||| || ||||| | |||||| || || |||||||| ||| | ||||| ||||||||||| ||||| ||||||
----gtaaaatatattttcttgtataattctgtttgaggtcatggcctcaagaagtgaaa------cttgagaattggtttttctttgatgtat---cagATCAGTTCTGAAATTTGATGAGCTCGGTTTAGAGATAGCGCGAATTGCTTTACCCGCAGCACTTGCTTTAACAGCTGATCCTATTGCATCTCTAGTTGAC
upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G51340.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgtgttacatgccttattcctagaaattctgattgatttgatgctcaaatttgttgttttggtttcttttccacttggttccttaaaatgaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATTTCCAGCAGCACTGGCTCTGACAGCAGATCCTATTGCTTCTCTGGTTGAC-----
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----gtaaaatatattttcttgtataattctgtttgaggtcatggcctcaagaagtgaaa------cttgagaattggtttttctttgatgtat---cagatcagTTCTGAAATTTGATGAGCTCGGTTTAGAGATAGCGCGAATTGCTTTACCCGCAGCACTTGCTTTAACAGCTGATCCTATTGCATCTCTAGTTGACACAGCMapped 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|110722935|gb|EE099669.1|EE099669EST: TCCCGTGATGGGAAGGGAATCCCCCTCTGGATATTCTTAAAGGATGCAAG ATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATT
genomic: TCCCGTGATGGGAAGGGAATCCCCCTCTGGATATTCTTAAAGGATGCAAGgtaatacttc ... gaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaatttgttgttttggtttcttttccacttggttccttaaaatgaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATTTCCAGCAGCACTGGCTCTGACAGCAGATCCTATTGCTTCTCTGGTTGAC
ttaaaatgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgttacatgccttattcctagaaattctgattgatttgatgctcaaatttgttgttttggtttcttttccacttggttccttaaaatgaatgggcagATTCGCCTTCAAAATGGATGAGCTTGGTTTGGAAATAGCACAAATTGCATTTCCAGCAGCACTGGCTCTGACAGCAGATCCTATTGCTTCTCTGGTTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - catgcct
- - - - - - - - - - - agaaatt
- - - - - - - - - - - - - - -ctgattg
- - - - - - - - - - - - - - - - - - - -tgatgct