Sequence
atgc intronic sequence ATGC exonic sequenceGGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggtttttggtcagatgtgatacatttcttgtactatttgtgattcagatatattattctccctgctacat...
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os09g17840.1 (Oryza sativa), 5'ss of exon 1
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggtttttggtcagatgtgatacatttcttgtactatttgtg-attcagatatattattctccctgctacat----------------------------------------------------------------------------
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GTATTACCCCAATTGTGACATCTGGAATGGTAATGCAACTTCTAGTGGGATCAAAGATTATTGAAGTTGACAACAGTGTGAGAGAGGACCGTGCACTTCTgtaagtatttatagaaataacacaatctcctatttattggtggataacatgttcagagtctagtgtgcatgtactgctagccagtcttctacctagtgttttagctaacatcagaaaattgcagagcttccttattctttttctttctcctggtggtaatcttttgatgtgacttag
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os09g17830.1 (Oryza sativa), 5'ss of exon 1
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctt-----tag-gctaagttctatttgggtttttggtcagatgtgatacatttcttgtactatttgtgattcagatatattattctccc-tgctacat----------------------------------------------------------------
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GTATTACCCCAATTGTGACATCTGGAATGGTAATGCAACTTCTAGTGGGATCAAAGATTATTGAAGTTGACAACAGTGTGAGAGAGGACCGTGCACTTCTgtaagtatttatagaaatagcgcaatatcctattttatattgtc-ttatatattggtggtaatgtgttcagagtctaatgtgcatgtactgctagcctgtcctgcacctagtgatttagtgaatgaaagttttttttttttgcctggtggtaatcttgtgatgtgactcag
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 5'ss of exon 2
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggtttttggtcagatgtgatacatttcttgtactatttgtgattcagatatattattctc--cctgctacat---------------------------------------------------------------------------------------------------
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GTATCACTCCAATTGTGACATCTGGCATGGTAATGCAACTTCTAGTGGGATCAAAGATCATTGAAGTTGACAACAGTGTGAGAGAGGATCGTGCTCTGCTgtaagtattatgagattaacactatgttctttactattacctgaaccttgaaacttagtgccttatttactat---ggtctgctgtttgtagcccaccatatttcagcgaatggctattgattaaatgctactacgtatctgattcatgtttaccatgtcttttgattatatttgttacgctaatgtacttttttacccag
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G307252_T01 (Zea mays), 5'ss of exon 2
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctt--------taggc--taagttctatttgggtttttggtcagat--gtgatacatttcttgtactatt---tgtgattcagatatattattctccctgctacat--------------------------------------------------
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GTATCACTCCAATTGTAACATCTGGAATGGTGATGCAACTTCTAGTGGGATCAAAGATTATTGAAGTTGACAACAGTGTGAGGGAGGATCGTGCTCTGCTgtaagtgttgttgggtagtatagacatcaaattctatatgtattggtggatgctttgattatccatccttttatcaattgactgacattgagaactgcaaagctttatggtttttattcttgtatctggtgttttcatgtgattcatagtgtactttttacccag
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G073498_T02 (Zea mays), 5'ss of exon 1
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggttt---ttggtcagatgtgatacatttc----ttgtactatttgtgattcagatatattattctccctgctacat-----------------------------------------------------------------
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GTATTACTCCAATTGTGACATCTGGGATGGTAATGCAACTTCTTGTTGGATCGAAGATCATTGAAGTTGACAACAGTGTGAGAGAGGATCGTGCTCTGCTgtaagtgttgtctta-ttaaaaataatgtaaccttcaatttatcacaattctaactgttggtggttgtttcatctgcagtctttctgtagcatt-tctctatcatagtctgtcaaagtagattataaaccttctgatttgtattgtgatgcacattgcacttctttactcag
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G130987_T04 (Zea mays), 5'ss of exon 1
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggtttttggt-----cagatgtgat----acatttct-tgtactatttgtgattcagatatattattctccctg-ctacat--------------------------------------------
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GTATTACTCCAATTGTGACCTCTGGTATGGTAATGCAACTTCTTGTCGGATCGAAGATCATTGAAGTTGACAACAGTGTGAGAGAGGATCGTGCTCTGCTgtaagtgttgtctttctaaaaat--attgtgatcttcaattatcacaattctaatcgtagcatttctctatcaagtctgccatagtagattataaaccttctgatctgtatttaatatatttgtattgtgatgcacattgcatttctttactcag
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ11193 (Selaginella moellendorffii), 5'ss of exon 1
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggtttttggtcagatgtgatacatttcttgtactatttgtgattcagatatattattctccctgctacat
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GAATTACTCCCATCGTTACTTCTGGTCTTGTGATGCAGCTCTTGGCTGGCTCGAAGATTATCGAGGTTGACAACAACGTGAGAGAAGACCGAGCTCTTTTgtaagtgtttttgacatttgtgcctggtggcttctactgatggttttgtgggactttgtag---------------------------------------
upper sequence: Vv00s2574g00010.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: EFJ15673 (Selaginella moellendorffii), 5'ss of exon 1
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggtttttggtcagatgtgatacatttcttgtactatttgtgattcagatatattattctccctgctacat
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GAATTACTCCCATCGTTACTTCTGGTCTTGTGATGCAGCTCTTGGCTGGCTCGAAGATTATCGAGGTTGACAACAACGTGAGAGAAGACCGAGCTCTTGTgtaagtgtttttgacatttgtgcttggtggcttctactgatggttttgtgggactttgtag---------------------------------------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|110720751|gb|EE096945.1|EE096945EST: TCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTT GAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGT
genomic: TCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcc ... tgcctctcagGAATGGTGCACAAAAGCTACTGGGCATCCTGATAGCTGTTGGTGAAGCTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGATCACCCCAATTGTGACTTCTGGACTGGTGATGCAACTCTTGGCTGGGTCAAAGATTATTGAAGTGGACAACAATGTGCGTGAGGATCGTGCTCTCTTgtaagtatcctttaggctaagttctatttgggtttttggtcagatgtgatacatttcttgtactatttgtgattcagatatattattctccctgctacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttctccc