Sequence
atgc intronic sequence ATGC exonic sequencegtttgtatttgcatacttccaagaactttatcagtaatcatttggaggttaattgtattaccatatccacatttcagGAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCTGCAAGGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0244g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g31950.1 (Oryza sativa), 3'ss of exon 9
------gtttgtatttgcatacttccaagaac-----tttatcagtaa---tcatttggaggttaattgtattaccatatccacatttcagGAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCTGCAAGGCATG
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gtaacatccttttttccttttcttccaaagatggcaatcaaacagagaggtccatttatctgtgaatgctcattttaagctatttgtacagGAAGAAGTTGTTATGAAGAGGTGTTGGCTTGCTCGTTATTGGGGCTTGGCTGTTCAATATG
upper sequence: Vv01s0244g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G44630.1 (Glycine max), 3'ss of exon 9
gtttgtatttgcatacttccaagaa------ctttatcagtaatcatttggag-gttaattgtattaccatatccacatttcagGAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCTGCAAGGCATG
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gtatatacttccacagttgcaggagtaaattcgtatttattagttatttagaatacttgttatatagattttttt-cttgtcagGAAGAAGTTGTTCTAAAGAGGTGTTGGCTTGCTCGTTATTGGGGTTTAGCTGCAAAATATG
upper sequence: Vv01s0244g00070.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT5G13260.1 (Arabidopsis thaliana), 3'ss of exon 9
gtttgtatttgcatacttccaagaactttatcagtaatcatt-tggaggttaattg-tattaccatatccacatttcagGAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCTGCAAGGCATG
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gtttgtgttcatgtttttgcgcaatccacacataagcttatggtagggattaagtaacacagccttgcaaaattttcagGAGGAAGTTGTTCTTAAGCGGTGCTGGCTAGCTCGGTATTGGGGTCTAGCTTCCAGATATGMapped 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|30256262|gb|CB972105.1|CB972105EST: AAGCTCTTCGCTCAATGACTCAAAGGATGGTTTTGACTCAGAAAGAGATG GAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCT
genomic: AAGCTCTTCGCTCAATGACTCAAAGGATGGTTTTGACTCAGAAAGAGATGgtttgtattt ... cacatttcagGAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaactttatcagtaatcatttggaggttaattgtattaccatatccacatttcagGAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCTGCAAGGCATG
ggttaat putative branch site (score: 4)
ttaattgtatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtatttgcatacttccaagaactttatcagtaatcatttggaggttaattgtattaccatatccacatttcagGAGGAAGTTGTTCTTAAGAGGTGTTGGCTTGCTCGCTATTGGGGTTTAGCTGCAAGGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC