Sequence
atgc intronic sequence ATGC exonic sequence...gatattgattggattggaatgaatatttttagcattccaaacatatttatcttgcaataagcttcctattatatttttaatattcttatttttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAATGGCGAAGCCTTGTTTTGCGACATCCATCTCTTTTGAAGAATATGACCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA17G00830.1 (Glycine max), 3'ss of exon 7
gatattgattggattggaatgaatatttttagcattccaaa-catatttatcttgcaataagcttcctattatatttttaatattcttatttttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAATGGCGAAGCCTTGTTTTGCGACATCCATCTCTTTTGAAGAATATGACCC
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tgtgtgtgttgagttgataatgatgacattggtacataaaatcattcttgtgctactattatcttctctgtatgtcactgatagttcttgagttattt-agACATTTGAGGAAGCTGATACCAAACATGATGGGAAGATTGACAAGGAAGAATGGCGAAACCTTGTCTTGCGGCATCCATCCCTTCTGAAAAATATGACTC
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G39940.1 (Glycine max), 3'ss of exon 7
---gatattgattg--gattggaatgaatatttttagcattccaaacatatttatcttgcaataagcttcctattatatttttaatattcttatttttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAATGGCGAAGCCTTGTTTTGCGACATCCATCTCTTTTGAAGAATATGACCC
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actgaatttctctgctaaatatagtaaac-cttttgtcagcct---tattcttgtgctactataatcttctctgtatgtcactgatagttcttaagttattt-agACATTTGAGGAAGCTGATACCAAACATGATGGGAAGATTGACAAGGAAGAATGGCGAAACCTTGTCTTACAGCATCCATCCCTTCTGAAAAATATGACTC
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G26570.2 (Arabidopsis thaliana), 3'ss of exon 7
--------gatattgattggattggaatgaatatttttagcattccaa-acatatttatcttgcaata--agcttcctattatatttttaata--ttcttatttttattt----cagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAATGGCGAAGCCTTGTTTTGCGACATCCATCTCTTTTGAAGAATATGACCC
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gtgtggttccttcctaccctgctcgatactatattcttgttccactgttgtatagccaactcatgatagcagttgagaataaagtaaagagtggtttctaagtttcttctttcacagACATTTGAGGAAGCTGATACAAAACATGACGGGAGGATCGATAAGGAAGAGTGGAGAACCCTTGTTCTCAGGCATCCTTCCCTTCTAAAGAATATGACTC
upper sequence: Vv00s1569g00020.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G55990.1 (Arabidopsis thaliana), 3'ss of exon 8
gatattgattggattggaatgaatatttttagcattccaaacatatttatcttgcaataagcttcctattatatttttaatattcttatttttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAATGGCGAAGCCTTGTTTTGCGACATCCATCTCTTTTGAAGAATATGACCC
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--------------------gtaagttacttactttttttcc-tcttcaccctatattttttctttgaaagtaatttcccgagttttgaat--gtttcagACGTTTGAGGAAGCAGACACAAAACACGATGGAAAGATCGATAAGGAAGAGTGGAGAAGCCTTGTTCTTAGACATCCCAGCCTTCTGAAGAACATGACTCMapped 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|110380717|gb|EC946005.1|EC946005EST: AATCTGGCATGAATCTTTCAGATGATGTAATAGAAAGTATCATTGATAAG ACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAA
genomic: AATCTGGCATGAATCTTTCAGATGATGTAATAGAAAGTATCATTGATAAGgtgctctcaa ... tttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAA
EST:
gi|77582686|gb|DV220332.1|DV220332EST: AATCTGGCATGAATCTTTCAGATGATGTAATAGAAAGTATCATTGATAAG ACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAA
genomic: AATCTGGCATGAATCTTTCAGATGATGTAATAGAAAGTATCATTGATAAGgtgctctcaa ... tttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatcttgcaataagcttcctattatatttttaatattcttatttttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAATGGCGAAGCCTTGTTTTGCGACATCCATCTCTTTTGAAGAATATGACCC
ttttaat putative branch site (score: 3)
ttcttatttttatttc CT-rich tract
aataagcttcctatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatattgattggattggaatgaatatttttagcattccaaacatatttatcttgcaataagcttcctattatatttttaatattcttatttttatttcagACCTTTGAGGAAGCTGATACTAAACATGATGGGAAGATAGACAAGGAAGAATGGCGAAGCCTTGTTTTGCGACATCCATCTCTTTTGAAGAATATGACCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - -tgattgg
- - - - - - - -ggaatga
- - - - - - - - - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - cttgcaa