Sequence
atgc intronic sequence ATGC exonic sequence...gttccaaaccggaggggtactttgagaaatgtggcccagcatgagcttactggacaatccttttagtgtctattggtttatttactttcaatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G47320.1 (Glycine max), 3'ss of exon 9
---------------------------------gttccaaaccggaggggtactttgagaaatgtggccca-------gcatgagcttactggacaatcctttta----gtgtctattgg----tttatttacttt----caatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
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gtagtttgctcagttatccgttataccatcaaaattcctagcaagacaagaattatgattgatacaaccttaacaattgaatatgtttatcaagagacaagatgaaggtgagtctcttgagttttttgttaactttgatccaatgctggcagGTACCTGTTGCTGCAGCTGTTTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA09G39020.1 (Glycine max), 3'ss of exon 9
--------------------------------------------------gttccaaaccggaggggtactttgagaaatgtggcccagcatgagcttactggacaatccttttagtgtctat-tggtttatttactttcaatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
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gtagcttagttatctgttatacctacaaaattcctagcaagacatgaattatgattgatacaaccttaacaattgaatatgtatatcaagacaagatgaaggtgagtctctttaaatttttctgttgttaactttgatccaatgctggcagGTACCTGTTGCGGCAGCTGTGTACTATGAAGACTTGTACGTGAATTTTAAGCTGGCCATGGAAACAGCTTCTCAAATAGCAGGGATTAGGCCATGGATAA
upper sequence: Vv15s0046g02160.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G61540.1 (Arabidopsis thaliana), 3'ss of exon 9
gttccaaaccggaggggtactttgagaaatgtggcccagcatgagcttactggacaatccttttagtgtctattggtttatttactttcaatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
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---------------gtctgtttcagaatcttgatc------gttctttcatatggatcaaataattttactctgtttcacatgatttc--tttttgtagGTGCCTGTTGCTGCAGCGGTTTACTACGAAGATATGTATGTAAACTTCAAGCTGGTGACGGAAACAGCTTCTCATATATCGGGTATCAGACTTTGGGTAAMapped 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|34364274|gb|CF405859.1|CF405859EST: AGGAGGATTGGCCTCCACTGTATGACATTGACTCCTTGAATAATAACAAG GTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAA
genomic: AGGAGGATTGGCCTCCACTGTATGACATTGACTCCTTGAATAATAACAAGgtgagtgact ... atcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAA
EST:
gi|110375135|gb|EC940096.1|EC940096EST: AGGAGGATTGGCCTCCACTGTATGACATTGACTCCTTGAATAATAACAAG GTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAA
genomic: AGGAGGATTGGCCTCCACTGTATGACATTGACTCCTTGAATAATAACAAGgtgagtgact ... atcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttactggacaatccttttagtgtctattggtttatttactttcaatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
agcttac putative branch site (score: 3)
tttatttactttcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttccaaaccggaggggtactttgagaaatgtggcccagcatgagcttactggacaatccttttagtgtctattggtttatttactttcaatcatggcagGTACCTGTTGCTGCTGCAGTTTATTATGAAGATATGTATGTTAACTTCAAACTGGTTATGGAAACAGCTTCTCAGATAGCAGGCATTAGATTGTGGATAA
- -ccaaacc
- - - - - ggagggg
- - - - - - - - - - - - - - - -tggccca
- - - - - - - - - - - - - - - - - - - -catgagc
- - - - - - - - - - - - - - - - - - - - - - - ttactgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - caatcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctattgg