Sequence
atgc intronic sequence ATGC exonic sequencegtattttaatctgctctttagcattttagggattttactgtttgaattatttgctttctgatgtattacaattttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCTGGAAAGCGACATGTAAAGCCTGTAGACCCAGATCCACATGGGGAGAAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA07G03850.1 (Glycine max), 3'ss of exon 18
gtattttaatctgctctttagcattttagggattttactgtttgaattatttgctttctgatgtattacaattttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCTGGAAAGCGACATGTAAAGCCTGTAGACCCAGATCCACATGGGGAGAAGT
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gtattgtagtcaatttctatagcttctgtggaactgcctgtgggaagcatttaccctactgtttaattttgttttt-agGAGGCAGAAGAGAAGAATGAAGAGTCAAGTGCCAGTGGGGTATCAAAGTCTGGGAAGCGGCACGTAAAACCTGTTGACCCTGATCCAAACGGGGAGAAGT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA15G01580.1 (Glycine max), 3'ss of exon 18
gtattttaatctgctctttagcattt-tagggattttactgtttgaattatttgctttctgatgtattacaat-tttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCTGGAAAGCGACATGTAAAGCCTGTAGACCCAGATCCACATGGGGAGAAGT
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--gtaataatccttgttttttcttctgtggggaaattcttgttggaaaagtattcatgctattgttttcccccctttttagGAGGCAGAAGAAAAAAATGAAGAATCAAGTGCTGGTGGGATATCAAAGTCTGGAAAACGGCATGCAAAACCTGTTGATCCGGATCCATGTGGTGAAAAAT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA08G22180.1 (Glycine max), 3'ss of exon 18
gtattttaatctgctctttagcattttagggattttactgtttgaattatttgctttctgatgtattacaat-tttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCTGGAAAGCGACATGTAAAGCCTGTAGACCCAGATCCACATGGGGAGAAGT
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gtattgtagtcaatttctatagcttctgtggaactgcctgttggaaaggcattcaccctattgtttaattttgtttttagGAGGCAGAAGAGAAGAATGAAGAGTCAAGTGCCAGTGGGGTATCAAAGTCTGGGAAGCGGCACATAAAACCTGTTGACCCTGATCCAAACGGAGAGAAGT
upper sequence: Vv09s0002g05110.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA13G43760.1 (Glycine max), 3'ss of exon 18
gtattttaatctgctctttagcattt-tagggattttactgtttgaat--tatttg--------------ctttctgatgtattacaattttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCTGGAAAGCGACATGTAAAGCCTGTAGACCCAGATCCACATGGGGAGAAGT
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--gtaataatcactgcttttgcttctgtggggaaattcttattggaaaagtattcatggctattgttcccccccccccccccccccccccccttagGAGGCAGAAGAAAAAAATGAAGAATCAAGTGCTGGTGGGATATCAAAGTCTGGGAAACGGCAGGCAAAACCCATTGATCCGGATCCACGTGGTGAAAAGTMapped 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|161720397|gb|FC070189.1|FC070189EST: AAAAGAAAATGAGGCAAAAGCAGAGGAAGGCAGAAGCCAGATCTAAGAAA GAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCT
genomic: AAAAGAAAATGAGGCAAAAGCAGAGGAAGGCAGAAGCCAGAGCTAAGAAAgtattttaat ... aattttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagggattttactgtttgaattatttgctttctgatgtattacaattttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCTGGAAAGCGACATGTAAAGCCTGTAGACCCAGATCCACATGGGGAGAAGT
ttctgat putative branch site (score: 3)
tttttt putative PPT
attttactgtttgaat 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
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gtattttaatctgctctttagcattttagggattttactgtttgaattatttgctttctgatgtattacaattttttagGAGGCAGAAGGAAAAAATGAGGAAACAAGTGCTAGTGGTGTCTCCAAGTCTGGAAAGCGACATGTAAAGCCTGTAGACCCAGATCCACATGGGGAGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT