Sequence
atgc intronic sequence ATGC exonic sequencegtaagctgtttattgtactctgtacttactgaacagatgtgtgaaacattacaaattacataactcttattgatggcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGATGTTAGAGCTGCAGAAGCTGCTCTTCGTGCATTGAACAGGAGTGATATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g31290.1 (Oryza sativa), 3'ss of exon 7
gtaagctgtttattgtactctgtacttactgaacagatgtgtgaaacattacaaattacataactcttattgatggcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGATGTTAGAGCTGCAGAAGCTGCTCTTCGTGCATTGAACAGGAGTGATATTG
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---------gtacgatatttcat--ttgctgactactattatag----ctagaaagtatgactcactagtt--ctatttgcagATTCGTGACACTCCACAGAAGGGTCATCACAAAATAATAGAATTTTATGATGTCAGAGCAGCTGAAGCTGCACTTCGTGCATTAAACAGGAATGATATTG
upper sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G01040.1 (Glycine max), 3'ss of exon 7
-------gtaagctgtttattgtactctgtacttactgaa---cagatgtgtga--aacattacaaa---ttacataactcttat-tgatggcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGATGTTAGAGCTGCAGAAGCTGCTCTTCGTGCATTGAACAGGAGTGATATTG
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gtaagttgtcgattgttggttttgccctgttttagtttagtttcatgtgctttatgaagattatacaaggttccttaaatattatgtctttaatggcagATCTATGAATATTCAGAAATGAATAATCACAAATTTATAGAGTTTTATGATGTCCGAGCTGCGGAAGCTGCTCTTCGTGCATTGAACAAGATTGACATTG
upper sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G17250.1 (Glycine max), 3'ss of exon 5
gtaagctgtttattgtactctgtacttactgaacagatgtgtg-----aaacattacaaat-tacataactcttattgatg-gcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGATGTTAGAGCTGCAGAAGCTGCTCTTCGTGCATTGAACAGGAGTGATATTG
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gtaagttgttcttgttggttttcatccaatttaggtgttcgtgttttaaaataatacaagcattcttaaatattgtctctgtaattgcagATCTATGAATATCCACAACTGAATCATGTCAAATTTATTGAATTTTATGATGTCCGGGCTGCAGAAGCTTCTCTTCGTGCATTGAATGGGATCTGCTTTG
upper sequence: Vv17s0000g00240.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G37810.2 (Glycine max), 3'ss of exon 3
gtaagctgt--ttattgtactctgtacttactgaacagatgtgt---gaaacattacaaat-tacataactcttattgatg-gcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGATGTTAGAGCTGCAGAAGCTGCTCTTCGTGCATTGAACAGGAGTGATATTG
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gtaagtcgttcttgttggttttcatccatttttggtgtttgtgttttaaaatgatacaagcattcttaaatattgtctctgtaattgcagATCTATGAATATCCACAATTGAATCATGTCAAATTTATTGAATTTTATGATGTCCGGGCTGCAGAAGCTTCTCTTCGTGCATTAAACGGGATCTGCTTTGMapped 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|161707608|gb|FC056889.1|FC056889EST: CCAATGATGATCTTCGTCAAATTTTTGGCATTTATGGAGAAATTAAGGAA ATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGAT
genomic: CCAATGATGATCTTCGTCAAATTTTTGGCATTTATGGAGAAATTAAGGAAgtaagctgtt ... tggcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgaacagatgtgtgaaacattacaaattacataactcttattgatggcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGATGTTAGAGCTGCAGAAGCTGCTCTTCGTGCATTGAACAGGAGTGATATTG
tattgat putative branch site (score: 3)
attacaaattacataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctgtttattgtactctgtacttactgaacagatgtgtgaaacattacaaattacataactcttattgatggcttacagATCCGGGAAACTCCACACAAGCGGCATCACAAATTCATTGAATTTTTTGATGTTAGAGCTGCAGAAGCTGCTCTTCGTGCATTGAACAGGAGTGATATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT