Sequence
atgc intronic sequence ATGC exonic sequence...gattaagatgctgtgagcattgaaaaccatgatatctataatcaattacattagctcgttaagctaagtaccattttattttcaattatcatcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g14510.1 (Oryza sativa), 3'ss of exon 1
gattaagatgctgtgagca-ttga-aaaccatgatatctataatcaattacattagctcgttaagctaagtaccattttattttcaattat--------catcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
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---------gatatgaggaattgataagctgcaagcttattaatagattgtgttaatac-ttgcattatttgtcaacctgttttgagatctaccctgtttatggttgcagATCATGTTACTCTTAACTTTGCAAGAAGTGGGGGGGCTGGTGGTCAGAATGTCAATAAAG
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G170532_T01 (Zea mays), 3'ss of exon 1
-----------gattaagatgctgtgagcattgaaaaccatgatatctataatcaattacattagctcgttaagctaagtaccattttattttcaattatcatcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
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gatatattttccagtgttatgaaatgatttttgaaa--cttgattaccatgtttatttagt---gcttgatttgctaaagtttattctaattccatttactg------cagATCATGTTACTGTTAATTTTGCAAGAAGTGGTGGTCCTGGTGGTCAGAATGTTAACAAAG
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G03930.1 (Glycine max), 3'ss of exon 1
gattaagatgctgtgagcattgaaaaccatgatatctataatcaattacattagctcgttaagctaagtaccattttattttcaattatcatcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
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----------------------------gttaggtcccttatgtctcttctta--tcatttttcaaataattattttgttttggtttg-----gtttcagATCATGTTACGGTGAGCTTTGCCAGAAGTGGAGGACCTGGGGGTCAGAATGTCAATAAAG
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G14410.1 (Glycine max), 3'ss of exon 1
gattaagatgctgtgagcattgaaaaccatgat--atctataatcaattacattagctcgttaagctaagtaccatt--ttattttcaattatcatcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
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---gccaaccttatatcccttgtcaccaattttcaaataataaccaaa-atattaaaaagaaaagagaaatgtaattgcttttttttttttggtttggtttcagATCATGTTACGGTGAGCTTTGCCAGAAGTGGAGGACCTGGGGGTCAGAATGTCAATAAAG
upper sequence: Vv02s0241g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G62850.3 (Arabidopsis thaliana), 3'ss of exon 1
gattaagatgctgtgagcattgaaaaccatgatatctataatcaattacattagctcgt-taagctaagtaccattttattttcaattatcatcattt-cagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
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ggaagggaaggattgaattttgtagtagattg-atgaataacctat-atattgacttggatgtgctcatagtttcatgtgtatctgtttttggtatttgcagACAATGTTACACTTAACTTTGCTAGAAGTGGTGGTCCTGGAGGCCAGAATGTGAACAAATMapped 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|18459100|gb|BM437378.1|BM437378EST: GGAGAGATCTCTCTCTTTTGGCAATGAGCCTACTCCCAAAATCACACTAG ACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATG
genomic: GGAGAGATCTCTCTCTTTTGGCAATGAGCCTACTCCCAAAATCACACTAGgtatttgaaa ... atcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATG
EST:
gi|351029521|gb|FQ436915.1|FQ436915EST: GGAGAGATCTCTCTCTTTTGGCAATGAGCCTACTCCCAAAATCACACTAG ACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATG
genomic: GGAGAGATCTCTCTCTTTTGGCAATGAGCCTACTCCCAAAATCACACTAGgtatttgaaa ... atcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacattagctcgttaagctaagtaccattttattttcaattatcatcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
tcatttc CT-rich tract
attttattttcaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattaagatgctgtgagcattgaaaaccatgatatctataatcaattacattagctcgttaagctaagtaccattttattttcaattatcatcatttcagACCATGTTACTGTGAGTTTTGCAAGAAGTGGTGGGCCTGGAGGTCAGAATGTCAACAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - gatgctg
- - - - - - - - - - - -aaaccat