Sequence
atgc intronic sequence ATGC exonic sequence...cttaatatgctgtgacagtgctttgaattacattggggtattaatggaggttccattgtatttggagtagtagtaagttgtggtgtatttggtttaatagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGATGAGGTTCCTGCAGAGGGTTAGGTGTTGGGAGTACCGTCAACATCCGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0551g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os05g19370.1 (Oryza sativa), 3'ss of exon 1
cttaatatgctgtgacagtgctttgaattacattggggtattaatggaggttccattgtatttggagtag-tagtaagttgtggtgtatttggtttaa----tagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGATGAGGTTCCTGCAGAGGGTTAGGTGTTGGGAGTACCGTCAACATCCGTC
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-----------gtgagctcctcctcctcctccgcctgttcctcgtcgacctccccctacatctctcctctcttctgatgcgcccggtttttgctgcgaggtgcagGGGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGCTGCTGGGAGTACCGCCAGCAGCCGGC
upper sequence: Vv00s0551g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g40180.1 (Oryza sativa), 3'ss of exon 1
-----cttaatatgctgtgacagtgctttgaattacattggggtattaatggaggttccattgtatttggagtagtagtaagttgtg----gtgtatttggttta-atagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGATGAGGTTCCTGCAGAGGGTTAGGTGTTGGGAGTACCGTCAACATCCGTC
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gtgagctcctcctccgacgccgcctccctccatcactctcgtctccagtttcccacccctccacctccatctctctcctgatccgtcctccgtcgttttgctgtgcacagGTGCGTACAAGTACGTGTCGGAGCTATGGAGGAGGAAGCAGTCGGACGTGATGAGGTTCGTGCAGCGCGTGCGGTGCTGGGAGTACAGGCAGCAGCCGGC
upper sequence: Vv00s0551g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G17390.1 (Arabidopsis thaliana), 3'ss of exon 1
cttaatatgctgtgacagtgctttgaattacattggggt-attaatggaggttccattgtatttggagtagtagt--aagttgtggtgt-atttggtttaatagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGATGAGGTTCCTGCAGAGGGTTAGGTGTTGGGAGTACCGTCAACATCCGTC
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----gtatgtt-tctcactattatctctctctcagatgtcgtttctgtattgttcattagattctagaagttaattaaggatgaaatgtgatttttgattacagGTGCGTACAAATACGTGTCGGAGCTATGGAGGAAGAAGCAGTCGGATGTGATGAGGTTTCTTCAGAGGGTTAGGTGTTGGGAGTATCGCCAGCAGCCTTC
upper sequence: Vv00s0551g00020.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G16720.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------cttaatatgctgtgacagtgctttgaatt--acattggg-gtattaatggaggttccatt--gtatttggagtagtag--taagttgtggtgt-atttggttta-atagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGATGAGGTTCCTGCAGAGGGTTAGGTGTTGGGAGTACCGTCAACATCCGTC
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gtaaatccttcttctccatcccttcttctagatcaaatcctctcgt-ttcttagatcgattcagcttctccattgtttgttcaaatgatgtttctgttacgtatctgttattgcaaactacttagcttaatgatttgattgatatagGTGCGTACAAGTATGTATCTGAGCTATGGAGGAAGAAACAGTCCGATGTGATGAGATTCCTCCAGAGGGTTAGGTGCTGGGAGTACAGACAGCAACCTTCMapped 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|110412621|gb|EC978376.1|EC978376EST: CTCTCTCGCCATGG GGGCTTACAAATATGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGA
genomic: CTCTCTAGCCATGGgtactctttc ... ggtttaatagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaggttccattgtatttggagtagtagtaagttgtggtgtatttggtttaatagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGATGAGGTTCCTGCAGAGGGTTAGGTGTTGGGAGTACCGTCAACATCCGTC
tatttggtttaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttaatatgctgtgacagtgctttgaattacattggggtattaatggaggttccattgtatttggagtagtagtaagttgtggtgtatttggtttaatagGGGCTTACAAATACGTGTCCGAATTATGGAGGAAGAAGCAATCAGACGTGATGAGGTTCCTGCAGAGGGTTAGGTGTTGGGAGTACCGTCAACATCCGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - -tatgctg
- - - - - - - - - tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtggtg