Sequence
atgc intronic sequence ATGC exonic sequenceCATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgttttatcacatgctgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 5'ss of exon 2
CATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgttttatcacatgctgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
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CATCATCTCTGCAATTGAGTTTGACAAATCCGGTGACCATCTTGCCACTGGAGATAGAGGTGGTCGTGTAGTTTTATTTGAAAGGACTGACTCCAGGGATgtaagt------accacacactat--ctaagttatgtaggtttcttgt-ttaaatctcttgttctcatagaagtcaatttatatgcag---------------------------------------------
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: LOC_Os06g36770.1 (Oryza sativa), 5'ss of exon 2
CATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgttttatcacatgctgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
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CATCATCTCTGCAATTGAGTTTGATAAATCTGGTGATCATCTTGCCACCGGAGACAGAGGAGGACGTGTTGTTTTATTTGAAAGGACAGATGCTCGGGATgtaagc------accattagttgaacttctcttgctcaatttcat--tattttatactcatgaaagtctatctgttagcag----------------------------------------------------
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G165418_T02 (Zea mays), 5'ss of exon 3
CATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgttttatcacatgc-tgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
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CATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCGGGATgtaagc------accacatgtatgaacttatcttggttttgattttaatatttttccctaataagttgttataccagcag------------------------------------------------------
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G165418_T01 (Zea mays), 5'ss of exon 2
CATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgttttatcacatgc-tgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
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CATCATATCTGCAATTGAATTTGACAAATCTGGTGACCATCTTGCCACTGGGGATAAAGGAGGACGTGTGGTTTTATTTGAAAGGACAGATGTTCGGGATgtaagc------accacatgtatgaacttatcttggttttgattttaatatttttccctaataagttgttataccag---------------------------------------------------------
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: GRMZM2G069631_T02 (Zea mays), 5'ss of exon 2
CATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgttttatcacatgctgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
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CATAATATCTGCAATTGAGTTTGACAAATCTGGGAATCATCTTGCTACTGGAGATAGAGGTGGACGTGTGGTTTTGTTCGAAAGAACAGACATTGCTGATgtaagt-gctacactatataag----------ttctataatctttcttgcttaaatctcgtgtgcccatagtgctaatgtatgtgcag---------------------------------------------
upper sequence: Vv11s0016g02550.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: PP1S100_124V6.1 (Physcomitrella patens), 5'ss of exon 2
CATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatg--ttgtttt-atcacatgctgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
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CATCATCTCTGCTATTGAGTTTGATAAAACTGGAGAGCATTTGGCGACTGGAGACCGAGGAGGACGAGTTGTGCTGTTTGAGAGGACGGATGGCAGAGATgtaaggcccgtttggatttcat-ccgtgccgaagcctttt-------tgtgggtgtagagtgatatattgctgagcgtagat-gtgtctgctgcaat-cttcttgtgctg--------------------------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|27755257|gb|CB036012.1|CB036012EST: GTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGAT CATGGTGGCTATAGGAGAGATCTTGAGATGATGGATCATCCTGTTAGAACA
genomic: GTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgtt ... taatgtatagCATGGTGGCTATAGGAGAGATCTTGAGATGATGGATCATCCTGTTAGAACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATCATTTCTGCTATTGAGTTTGACAAAACTGGAGACCATCTTGCGACTGGTGATCGTGGGGGACGGGTGGTTTTATTTGAAAGGACAGACAAGAGGGATgtatgttgttttatcacatgctgtgccttttttttttcattttctcttattttgtttcattttatttctggccttgatttacttctatatcacttcttgttgcaccattttaatgtaattgcataatgtatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG