Sequence
atgc intronic sequence ATGC exonic sequence...aaaaagaactattgtacccaaggaagatttaatccaatcagattctcaaattacatttcattgtttattgtttattggttgatcatttctgtggtttcagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGCGACAAGGCAAGCTTCAGGTGCCATATTACAAGATGTTGCTGATTCAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g74460.2 (Oryza sativa), 3'ss of exon 6
aaaaagaactattgtacccaaggaagatttaatccaatcagattctcaaattacatttcattgtttattgtttattggttgatcatttctgtggttt-cagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGCGACAAGGCAAGCTTCAGGTGCCATATTACAAGATGTTGCTGATTCAGGC
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----------------------gtcagttttgttttttcctttgcctgaaatattttacact-ctagttgcccaactaaatctcaccaaaccattctgcagGAATCCTGCTACATTTCTTCATGCGTACACATGCCTTCCCCTCGCCCAATCCACAAGGCAGGCGGCTAGTGCAGTTTTACAAGACATTGCTGATTCAGGA
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G29450.3 (Glycine max), 3'ss of exon 6
aaaaagaactattgtacccaaggaagatttaatccaatcagattctcaaattac-atttcattgtttattgtttattggt-tgatcatttctgtggtttcagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGCGACAAGGCAAGCTTCAGGTGCCATATTACAAGATGTTGCTGATTCAGGC
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-ttggggactgacggttgtttgtatg-tttaatgccccttatttcccaatttcttatgttatatttgggtgataaatattgttatttttctgatcgtatcagGAATCCAGCTACATTTCTTCATGCCTACACTTGTCTACCTCTTGCATATGCAACCAGGCAAGCTGCTGGTGCTATCTTGCAAGACGTTGCTGATTCTGGT
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA13G40080.2 (Glycine max), 3'ss of exon 7
aaaaagaactattgtacccaaggaagatttaatccaatcagattctcaa-attacatttcattgtttattgtttattggt-tgatcatttctgtggtttcagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGCGACAAGGCAAGCTTCAGGTGCCATATTACAAGATGTTGCTGATTCAGGC
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-ttggggaccgatg-gtcggttgtatgtttaatgtcccttatttcccaatatcttatgttatatttgggtgataaatgttgttatttttctgattgtatcagGAATCCAGCTACATTTCTTCATGCCTATACTTGTCTACCTCTTGCATATGCAACCAGGCAAGCTGCCGGTGCTATCTTGCAGGACGTTGCTGATTCTGGT
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 6
aaaaagaactattgt-acccaaggaagatttaatccaatcagattctcaaattacatttcat-tgtttattgt--ttattggttgatcatttctgtggtttcagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGCGACAAGGCAAGCTTCAGGTGCCATATTACAAGATGTTGCTGATTCAGGC
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----ataactgttgttacacacattaaatcttctctctttgtagtttacctctgagcttcaggtaaaaaaggttcttacaatcttcccattttcccatttttagGAACCCAGCTACATTTCTTCATGCCTATACTTGTCTTCCCCTTCCATATGCGTTAAGGCAAGCTACAGGAACCATATTGCAAGAAGTTTGCGCGTCTGGTMapped 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|110699831|gb|EE077188.1|EE077188EST: CTCGGAGGAACAGATGTTGTCTTCTCTTCTCTCATTCATTCTTTCAATTG GAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGC
genomic: CTCGGAGGAACAGATGTTGTCTTCTCTTCTCTCATTCATTCTTTCAATTGgtttgtttct ... gtggtttcagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaattacatttcattgtttattgtttattggttgatcatttctgtggtttcagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGCGACAAGGCAAGCTTCAGGTGCCATATTACAAGATGTTGCTGATTCAGGC
ggttgat putative branch site (score: 5)
tttctgt putative PPT
atttcattgtttattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaagaactattgtacccaaggaagatttaatccaatcagattctcaaattacatttcattgtttattgtttattggttgatcatttctgtggtttcagGAACCCAGCTACATTTCTTCATGCATACACCTGTCTTCCCCTTGCTTATGCGACAAGGCAAGCTTCAGGTGCCATATTACAAGATGTTGCTGATTCAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
-aaaagaa
- - - - - - - - -ccaagga
- - - - - - - - - - - - - - - - -ccaatca
- - - - - - - - - - - - - - - - - - - - - - - caaatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttga