Sequence
atgc intronic sequence ATGC exonic sequenceTTCTTTTGAAAAATTTGCACACGAGTACTTCAAATATTTGACACATTCTCTTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAGgttaggcccattctttgatatttgcacatgtagatacatgggtggtgtgcaaatactaatgttgttctcttgtgattttgatttattggtccaatggcag
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: LOC_Os06g14750.1 (Oryza sativa), 5'ss of exon 9
TTCTTTTGAAAAATTTGCACACGAGTACTTCAAATATTTGACACATTCTCTTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAGgttaggcccattctttgatatt-tgcacatgtagatacatgggtggtgtgcaaatactaatgttgttctcttgtgattttgatttattggtccaatggcag
||| ||||| | | |||| ||||||||||||||||| ||| | ||| | ||||||||||| || |||||||||||| |||||||| |||| |||||| | ||||| | | || | ||||| | | || |||| | || || | || | | || |||
TTCATTTGAGGACTATGCAGCTGAGTACTTCAAATATTTAACAGAATCTGTATCTTCAGGAAGCCCCACGTGCCTTGCTAAAGTTCTTGGTCTTTACCAGgtttg--tgattctctattgttatattcatgtgtctgt-cagatgatgtg-agattgaaacatgtgaaatttaccgctacgtatttttgactag-------
upper sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GRMZM2G132373_T01 (Zea mays), 5'ss of exon 9
TTCTTTTGAAAAATTTGCACACGAGTACTTCAAATATTTGACACATTCTCTTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAGgttag----gcccattctttgatatttgcacatgtagatacatgggtggtgtgcaaatactaatgttgttctcttgtgattttgatttattggtccaatggcag
||| ||||| | | ||| || || ||||||||||||| | | ||| | || ||||||||||||||||| ||||| | |||||| ||||||||||| | || | |||||||| || | ||| || | | |||| | ||| || || | | | | || || || |||
TTCATTTGAGGATTATGCTGCTGATTATTTCAAATATTTGATAGACTCTGTATCATCTGGAAGCCCAACTTGCCTCACTAAAGTCCTTGGTCTTTATCAGgttcgtgttgctactactttgatactt-cttgtgtttat---cgaatcatgtgagattac--ataatgaac----ataactgtgcatttatgcaccag------
upper sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA20G01680.1 (Glycine max), 5'ss of exon 16
TTCTTTTGAAAAATTTGCACACGAGTACTTCAAATATTTGACACATTCTCTTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAGgttaggccca-------------ttctttgatatttgcacatgtagatacatgggtggtgtgcaaatactaatgttgttctcttgtgattttgatttattggtccaatggcag
|| |||||||||||||||| |||| |||||||| ||| || | || | ||||||| | |||||||| ||||| ||||||||||||||||||||||| || | || ||||| |||| || || | | |||||| |||| ||| || | | | || ||| ||| | ||||||
GTCCTTTGAAAAATTTGCACCTCAGTATTTCAAATACCTGATGGATGCCCTCAACTCAGGAGGGCCAACTTGTCTTGCCAAAATTCTTGGTATTTATCAGgtgagaactgagaactcaagtctttatttgacattt-tgtatacaggcgccagactggtgtataaatgtaaattttatgtt--tacaat----gtttcttgttttggtggcag
upper sequence: Vv01s0011g04790.t01 (Vitis vinifera), 5'ss of exon 9
lower sequence: GLYMA07G34030.1 (Glycine max), 5'ss of exon 11
TTCTTTTGAAAAATTTGCACACGAGTACTTCAAATATTTGACACATTCTCTTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAGgttag------gcccattctttgatatttgcacatgtagatacatgggtggtgtgcaaatactaatgttgttctcttgtgattttgatttattggtccaatggcag
|| |||||| ||||||||| |||| |||||||| ||| || | || | ||||||| | || ||||| ||||| ||||||||||||||||||||||| || | |||| ||||| |||| ||| | || | | ||||| |||| ||| || | | ||| ||| | ||||||
GTCCTTTGAAGAATTTGCACCTCAGTATTTCAAATACCTGATGGATGCCCTGAACTCAGGAGGGCCTACTTGTCTTGCCAAAATTCTTGGTATTTATCAGgtgagaactcgactcattatttgacattt-tacacaaacatgccagaccggtgtataaatgtaaattttatgtttacaaagtttc------ttgttttggtggcagMapped 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|110373978|gb|EC938422.1|EC938422EST: TTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAG GTCACTGTCAAAAATCTGAAAGGTGGAAAGGAAACAAAAATGGATTTGATG
genomic: TTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAGgttaggccca ... ccaatggcagGTCACTGTCAAAAATCTGAAAGGTGGAAAGGAAACAAAAATGGATTTGATG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTTTTGAAAAATTTGCACACGAGTACTTCAAATATTTGACACATTCTCTTAGCTCAGGAAGCCCAACTTGCCTTGCTAAAATTCTTGGTATTTATCAGgttaggcccattctttgatatttgcacatgtagatacatgggtggtgtgcaaatactaatgttgttctcttgtgattttgatttattggtccaatggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA