Sequence
atgc intronic sequence ATGC exonic sequence...tacacaaagagacatgcatatatatataagcataaagagaattgcatattagttcatatccatgatttttatgtaatattggtaactttcatggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g21240.1 (Oryza sativa), 3'ss of exon 7
tacacaaagagacatgcatatata-tataagcataaag-agaattgcatatt----agttcatatccatgatttttatgtaatattggtaactttcatggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
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-ctacaattgcactggtcttaataatataggggtaggacatgctcatatacttcaaattaaattcccatgacctgaa-gcacatttgattgctct----attgcagATTCAGAGGAAATTGCAGCTTCGAATTGAAGAACAAGGGAAATATCTGCAGAAGATGTTTGAAAAGCAATGTAAATCCAGCACACAGAGTGTGCAGGATC
upper sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G18800.1 (Glycine max), 3'ss of exon 5
---tacacaaagagacatgcatatatatataagcataaagagaattgcatattagttcatatccatgatttttatgtaatattggtaactttcatggtcgca-gATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
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gttaattgtctgaggcatcc---cacttgtttctcttgtgctgatcatatcttt-ttcataggtctaataccgttcttctccttcccttttttttttctgtaagATTCAAAGAAATCTACAGTTGCGAATAGAAGAACAAGGAAGGTACCTCCAGATGATGTTTGAGAAGCAATGTAAACCTGGAAATGAAACGTTCAAGGCAC
upper sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA19G35080.1 (Glycine max), 3'ss of exon 8
tacacaaagagacatgcatatatatataagcataaagagaattgcatattagttcatatccatgatttttatgtaatattggtaactttcatggtcg----cagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
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cccatgcatgaaatttccaaggcatactcacttctctcttatggt-tgttcctt--tttccacggtatg-atctgatacagttctctcctattttctatgttagATTCAAAGAAATCTACAGTTGCGAATAGAAGAACAAGGAAGGTACCTTCAAATGATGTTTGAGAAGCAGTGCAAACCTGGCATTGAAACATTTAAGGCAT
upper sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA03G32350.1 (Glycine max), 3'ss of exon 8
-tacacaaagagac--atgcatatatatataagcataaagagaattgcatattagttcatatccatgatttttatgtaatattggtaactttcatggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
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atgcatgaaatttccaaggcacgcccacttgtctcttatggttgttgttccttttttcatggt-atgatctg-atacagttctctcctattttcta-tgttagATTCAAAGAAATCTACAGTTGCGAATAGAAGAACAAGGAAGGTACCTTCAGATGATGTTTGAGAAGCAGTGCAAACCTGGCATTGAAACATTTAAGGCAT
upper sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA10G04540.1 (Glycine max), 3'ss of exon 8
----tacacaaagagacatgcatatatatataagcataaagagaattgcatattagttcatatccatgatttttatgtaatattggtaactttcatggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
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ggttaattgtcggaggcatcc---cacttgtttctcttatactgatcatatcttt-ttcataggtctaataccgttcttctccttcccttcttttttctgtcagATTCAAAGAAACCTACAGTTGCGAATAGAAGAACAAGGTAGATGCCTCCAGATGATGTTTGAGAAGCAAT------------------------------
upper sequence: Vv07s0005g04120.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G28610.1 (Arabidopsis thaliana), 3'ss of exon 7
--------------------------------------tacacaaagagacatgcat-atatata-taagcataaagagaattgcatattagttca-tatccatgatttttatgtaatattggtaactttca--tggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT---
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gtatgttcataaaggcattgccattagctttggttttttatacttatgtgtttggattgtagctgctaaagagaaaatgtgaaacctgtttataaagtattctgaatttgggtatgacatgtgttcttttcctttgcctgcagATTCAAAGAAACCTGCAACTCCGAATAGAAGAACAAGGCAAGTACCTGCAAATGATGTTCGAGAAGCAA---AACTCTGGTCTTACCAAAGGGACAGCCTCAAMapped 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|110391429|gb|EC956405.1|EC956405EST: CCCTGCGATTACAGATGGAAGTTCAGAAGAGGCTGCACGAACAACTTGAG ATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAA
genomic: CCCTGCGATTACAGATGGAAGTTCAGAAGAGGCTGCACGAACAACTTGAGgtatgaattt ... atggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAA
EST:
gi|77586746|gb|DV222511.1|DV222511EST: CCCTGCGATTACAGATGGAAGTTCAGAAGAGGCTGCACGAACAACTTGAG ATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAA
genomic: CCCTGCGATTACAGATGGAAGTTCAGAAGAGGCTGCACGAACAACTTGAGgtatgaattt ... atggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattagttcatatccatgatttttatgtaatattggtaactttcatggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
tggtaac putative branch site (score: 2)
ctttcat CT-rich tract
atttttatgtaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacacaaagagacatgcatatatatataagcataaagagaattgcatattagttcatatccatgatttttatgtaatattggtaactttcatggtcgcagATACAAAGAAATTTACAGCTGCGAATAGAAGAACAAGGGAGATACCTCCAAATGATGTTTGAGAAGCAATGCAAATCAGGAATTGACAAGCTGAAGACAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- -acaaaga
- - - - - -acatgca
- - - - - - - - - - - - - - - - - aagagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccatga