Sequence
atgc intronic sequence ATGC exonic sequenceCCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgctgttgtcttcttttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtagtaatgcctaaata...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12770.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: LOC_Os05g50370.1 (Oryza sativa), 5'ss of exon 7
CCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgc-tgttgtcttct---tttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtagtaatgcctaaata
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CAGGAAGGCAACCCTTTGTGTCCATCCAGATAAATTACAGCAAAGGGGTGCTACAATCAGACAGAAATACATATGCGAGAAGGTTTTTGATCTTCTTAAGgtttgtgcaatgtctacaaaatttgt-tatgattatttggaagttcattttctcatgtgtccttttccatttctgattgca-ttagtacaagcatgtttgca--
upper sequence: Vv18s0001g12770.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G438895_T01 (Zea mays), 5'ss of exon 9
CCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgctgttgtcttcttttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtagtaatgcctaaata
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CAGGAAGGCAACCCTATGTGTCCATCCAGATAAACTACAGCAGAGGGGCGCTACGATCAGACAGAAATACATATGTGAGAAGGTTTTTGATCTTCTTAAGgtatg-tgctctgtccacat-tgaat--gctctggt-tatttggaagttggatctctgctcacctgctgccacctg---ttttgcag-------------
upper sequence: Vv18s0001g12770.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G316635_T03 (Zea mays), 5'ss of exon 6
CCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgct-----gttgtcttcttttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtagtaatgcctaaata----------------------------------------------------------------------
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CAGGAAGGCAACCCTTTGTGTCCATCCAGATAAAGTGCAGCAAAGAGGTGCTACAATCAGACAGAAATACATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtgtgttctttggtcatcttgctttataaattag-ttacttatctacagttgct--taagtttcaatatttttgttggtatggctgctgctatactcccaagttctgttagcctcagtcacctctgggagactgggactatgttgatgtttctgcattgctgtggtgcttcacag
upper sequence: Vv18s0001g12770.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G316635_T01 (Zea mays), 5'ss of exon 6
CCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgct-----gttgtcttcttttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtagtaatgcctaaata
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CAGGAAGGCAACCCTTTGTGTCCATCCAGATAAAGTGCAGCAAAGAGGTGCTACAATCAGACAGAAATACATTTGTGAGAAGGTGTTTGATCTTCTTAAGgtgtgttctttggtcatcttgctttataaattag-ttacttatctacagttgct--taagtttcaatatttttgttggtatggctgctgctatact-cccaagt-
upper sequence: Vv18s0001g12770.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA01G07680.1 (Glycine max), 5'ss of exon 12
CCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatg--ctgttgtcttcttttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtag-taatgcctaaata
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TCGTAAAGCTACTCTATTTGTGCATCCTGACAAGCTGCAGCAGCGGGGGGCAAGCATTCAACAAAAGTACATTTGCGAGAAGGTTTTTGATCTTCTAAAGgtttgacctcatttgttcttttaagttctaaaccat-tctactgatactatattcacaacctacaatcataatatacacttacctaaagatagggactatt--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|110415388|gb|EC981293.1|EC981293EST: CTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAG GAGGCTTGGAACAAGTTCAACTCAGAGGAGTGATAAATCATGTGCTTCAAA
genomic: CTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgctgtt ... ttgtcctcagGAGGCTTGGAACAAGTTCAACTCAGAGGAGTGATAAATCATGTGCTTCAAA
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
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CCGGAAGGCCACTCTTTGTGTGCATCCTGATAAGTTGCAGCAGCGTGGTGCTAGCATTCAGCAGAAGTACATATGTGAGAAGGTTTTTGATCTTTTACAGgtatgctgttgtcttcttttgtgcattagcttaagtatctttatgggctagtgagcactaaaactgaagaggtttcaatttttgtagtaatgcctaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaactga