Sequence
atgc intronic sequence ATGC exonic sequence...gttataggcttagatggcagtcccttcattttggtcctttcttttgcctcttcaaaaatttgatgcacacaggaattgctatccttgattcttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTGTGGGTACTTTAGACGATAGCCAGTGACCTGCAGCTATGTTCCAGTAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0064g00450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G01150.1 (Glycine max), 3'ss of exon 4
gttataggcttagatggc--agtcccttcattttggtcctttcttttgcctcttcaaaaatttgatgcacacaggaattgctatccttgattcttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTGTGGGTACTTTAGACGATAGCCAGTGACCTGCAGCTATGTTCCAGTAATC----
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gttgcag-cgtaggtgccctaacatgttcatttgttccccaacatgcaagt-ttctattttgttaggtttacttccgtccttttccttaattcttgaatcagATAAATACCATGCTTGGGTTAATGCTGAATTCTTATTGGAAAAATGCTTTGTGGGTACCTTAGATGAAGGTCAGTGAA----GATTTCATTCTAATAATGCATA
upper sequence: Vv13s0064g00450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G36160.2 (Glycine max), 3'ss of exon 4
gttataggcttagatggc--agtcccttcattttggtcctttctt--ttgcctcttcaaaaatttgatgcacacaggaattgctatccttgattcttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTGTGGGTACTTTAGACGATAGCCAGTGACCTGCAGCTATGTTCCAGTAATC----
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----tcaacgtaggtgccctaacatgttcatttgttccccaacatggataaagtttctattttgttaggtttacttccgtccttttccttaattcttgaatcagATAAATACCATGCTTGGGTTAATGCTGAATTCTTATTGGAAAAATGCTTTGTGGGTACCTTAGATGAAGGTCAGTGAA----GATTTCATTCTAATAATGCATA
upper sequence: Vv13s0064g00450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ04902 (Selaginella moellendorffii), 3'ss of exon 3
gttataggcttagatggcagtcccttcattttggtcctttcttttgcctcttcaaaaatttgatgcacacaggaattgctatccttgattcttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTGTGGGTACTTTAGA-CGATAGCCAGTGACCTGCAGCTATGTTCCAGTAATC
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---------------------------------gtaagttgatttgttttctt---ggccctgtgctcaaag----------ctttgtttgctc---cagACAAATACCACGCTTGGGTGAATGCCGAGTTCCTCCTGGAGAGATGCCTCTTGGGCGCTCTAGAACAATAG------------------------------
upper sequence: Vv13s0064g00450.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ11012 (Selaginella moellendorffii), 3'ss of exon 3
gttataggcttagatggcagtcccttcattttggtcctttcttttgcctcttcaaaaatttgatgcacacaggaattgctatccttgattcttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTGTGGGTACTTTAGA-CGATAGCCAGTGACCTGCAGCTATGTTCCAGTAATC
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---------------------------------gtaagttgatttgttttct------tcccctgtgctcaaag--------ctttgtttgctc---cagACAAATACCACGCTTGGGTGAATGCCGAGTTCCTCCTGGAGAGATGCCTCTTGGGCGCTCTAGAACAATAG------------------------------Mapped 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|32461269|gb|CD802443.1|CD802443EST: TGTTGATATGCTAATGAAGGCGGTGGGGAAAGACTGCACATCTTTATTTA ACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTG
genomic: TGTTGATATGCTAATGAAGGCGGTGGGGAAAGACTGCACATCTTTATTTAgtatcctttg ... cttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTG
EST:
gi|110390010|gb|EC954893.1|EC954893EST: TGTTGATATGCTAATGAAGGCGGTGGGGAAAGACTGCACATCTTTATTTA ACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTG
genomic: TGTTGATATGCTAATGAAGGCGGTGGGGAAAGACTGCACATCTTTATTTAgtatcctttg ... cttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctcttcaaaaatttgatgcacacaggaattgctatccttgattcttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTGTGGGTACTTTAGACGATAGCCAGTGACCTGCAGCTATGTTCCAGTAATC
atccttgat putative branch site
ttcttcattc CT-rich tract
ttcaaaaatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttataggcttagatggcagtcccttcattttggtcctttcttttgcctcttcaaaaatttgatgcacacaggaattgctatccttgattcttcattcagACAAATACCACGCTTGGGTGAATGCTGAATTTTTACTGGAGAAATGCCTTGTGGGTACTTTAGACGATAGCCAGTGACCTGCAGCTATGTTCCAGTAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - tagatgg
- - - - - - - - - - -cccttca
- - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctatc