Sequence
atgc intronic sequence ATGC exonic sequence...agaaagttcattttctggcatattttgtgaagcctatgaaaattcagatgttcaatgttttccaattacttcttctaagtagtttattcgctttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGAGGAAATTTTCTGTAATACTCAAGGAGCGTGATGTTTATCGCCTTAAGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g09430.1 (Oryza sativa), 3'ss of exon 3
-----------------------------agaaagttcatttt--ctggcatattttgtgaagcctatgaaaattcagatgttcaatgtt-ttccaattacttc-ttctaagt-agtttattcgctttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGAGGAAATTTTCTGTAATACTCAAGGAGCGTGATGTTTATCGCCTTAAGTA
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gttagtatttctacccagtgacattcataatacatgccactctacttatgctgtttttcctatttcacgggaactgatattttcagtacccttctgattattgagttctaatccattttgtttcatccttttagTTATTTTGTCAGACTACTACGATTTGCCTTTCAATGATATCCTAGACTGGAGAAAATTTGCTGTTGTACTTAAGGAGCGTGATGTATATCAACTAAAAAG
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G02630.1 (Glycine max), 3'ss of exon 4
agaaagttcattttctggcatattttgtgaagcctatga---aaattcagatgttcaatgttttccaattacttcttctaagtagttt--attcgct-ttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGAGGAAATTTTCTGTAATACTCAAGGAGCGTGATGTTTATCGCCTTAAGTA
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------tttgaactgtaacttggtttgaatagatgatgctctggcttttggaacaggatgtatgtagacacaaccttgtaactgacctgaagatgttgttttgcagTGATATTGTCTAATTACTATGACCTTCCTTTCAATGATATTCTTGACTGGAACAAATTTGCTGTTGTACTCAAGGAGAGTGATGTATACCAGCTTAAACA
upper sequence: Vv03s0038g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G33330.1 (Glycine max), 3'ss of exon 4
--agaaagttcattttctggcat--attttgtgaagcctatgaaaattcagatgttcaatgttttccaattacttcttctaagtagtttattcgctttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGAGGAAATTTTCTGTAATACTCAAGGAGCGTGATGTTTATCGCCTTAAGTA
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actgtaacttggtttgaataaattaatgttctgatttttgagacaggatgtatgtagacaaccttgaaactgacctg---aagttgttaattt-tgttctgcagTGATATTGTCAAATTACTATGACCTTCCTTTCAATGATATTCTTGACTGGAACAAATTTGCCGTTGTACTCAAGGAGAGTGATGTTTACCAGCTTAAACAMapped 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|30320804|gb|CD004066.1|CD004066EST: AGTCAATAGCGCTCGTATAGCCGACTCAATCCATTATGGATGTGTTCCTG TAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGA
genomic: AGTCAATAGCGCTCGTATAGCCGACTCAATCCATTATGGATGTGTTCCTGgtaaggaatt ... ctttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGA
EST:
gi|18459571|gb|BM437849.1|BM437849EST: AGTCAATAGCGCTCGTATAGCCGACTCAATCCATTATGGATGTGTTCCTG TAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGA
genomic: AGTCAATAGCGCTCGTATAGCCGACTCAATCCATTATGGATGTGTTCCTGgtaaggaatt ... ctttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatgttcaatgttttccaattacttcttctaagtagtttattcgctttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGAGGAAATTTTCTGTAATACTCAAGGAGCGTGATGTTTATCGCCTTAAGTA
tttattcgcttttt CT-rich tract
tagtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaagttcattttctggcatattttgtgaagcctatgaaaattcagatgttcaatgttttccaattacttcttctaagtagtttattcgctttttgcagTAATCTTGTCTGACTACTATGATTTGCCATTCAATGACATTCTTGACTGGAGGAAATTTTCTGTAATACTCAAGGAGCGTGATGTTTATCGCCTTAAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - -tttctgg
- - - - - - - - - - - - - -tgaagcc
- - - - - - - - - - - - - - - - - -atgaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - caatgtt