Sequence
atgc intronic sequence ATGC exonic sequencegtttgttacttgcaactcttaatacctttttgctgtttaggaaaaatgattgttttaattgctgatgttagttctcatttgtttttgtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGAGGAGCAGATATCGTGGTTGCTACTCCTGGCCGCTTGAATGATATTCTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G08750.1 (Glycine max), 3'ss of exon 9
----------------------------------------------------------------------------------------------------gtttgttacttgcaactcttaatacctttttgctgtttaggaaaaatgattgttttaattgctgatgttagttctcatttgttt-ttgtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGAGGAGCAGATATCGTGGTTGCTACTCCTGGCCGCTTGAATGATATTCTGG
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gtaagtaattgttctcattttcatcaaattatttttttgttgggttttcatgcttcagcttgggttcctttgaaattttttgatgaactcacaaatttgagattgttaaatg-aatattgcttgtagtatcattcttcattggattgcctggctgggtttgctactatttattt--attcattcattatttttatagTGTTTGTATGGAGGAGCACCAAAGGGTCCTCAACTGAGAGACATTGATCGTGGAGCAGATATTGTGGTAGCCACTCCTGGTCGCTTGAATGATATTCTTG
upper sequence: Vv14s0066g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G00260.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------------------------------gtttgttacttgcaactcttaatacctttttgctgtttaggaaaaatgattgtt-------ttaattgctgatgttagttctcatttgtttttgtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGAGGAGCAGATATCGTGGTTGCTACTCCTGGCCGCTTGAATGATATTCTGG
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gtaagtaattgttcttatttttatcaaattatttttttgttgtgctttcatgcatcagtatggattcatttgaaattattgatgaactcacaaatttgagtttgttaaacaaatattgcttgtagtatcattcttcattggattgcttggctggttttgctactctttatttattcatttttttatagTGTTTGTATGGAGGAGCACCAAAGGGTCCTCAACTGAGAGACATTGATCGTGGAGCAGATATTGTGGTAGCCACTCCTGGTCGCTTGAATGATATTCTTG
upper sequence: Vv14s0066g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G01540.3 (Arabidopsis thaliana), 3'ss of exon 5
gtttgtta----cttgcaactcttaatacctt--tttgctgtttaggaaaaatgattgttttaattgctga-tgttagttctcatttgtttttgtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGAGGAGCAGATATCGTGGTTGCTACTCCTGGCCGCTTGAATGATATTCTGG
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gtatgtagaagtctctgaacttgtaaagtttcaacatgctacttgtgaagtatatgtctaacgtatgccaaatgtgtggtcttatt-atctctgtttc---agTGTTTGTATGGTGGTGCACCAAAGGGCCCTCAGTTGAGGGATTTAGAAAGAGGAGCAGATATCGTGGTTGCAACTCCTGGGAGATTGAATGATATCCTTG
upper sequence: Vv14s0066g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G14610.2 (Arabidopsis thaliana), 3'ss of exon 5
gtttgttacttgcaactctt-aatacctttttgctgtttaggaaaaatgattgttttaattgctgatgttagttctcatttgtttttgtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGAGGAGCAGATATCGTGGTTGCTACTCCTGGCCGCTTGAATGATATTCTGG
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----gtaagtgaaaatacttgaatacataagtactgaacatgctacttgagaagtgtcttattgagtgtttttgtcaatgtatatttgt------agTGTTTGTATGGTGGAGCACCCAAGGGTCCTCAGCTGAAGGAAATAGAAAGAGGTGTAGATATTGTTGTTGCAACTCCCGGGCGACTGAATGATATCCTTGMapped 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|161706631|gb|FC055861.1|FC055861EST: TACAAGATGAAGCTGTGAAGTTTGGAAGATCATCAAGACTTTCATGCACG TGTGTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGA
genomic: TACAAGATGAAGCTGTGAAGTTTGGAAGATCATCAAGACTTTCATGCACAgtttgttact ... gtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaatgattgttttaattgctgatgttagttctcatttgtttttgtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGAGGAGCAGATATCGTGGTTGCTACTCCTGGCCGCTTGAATGATATTCTGG
tgctgat putative branch site (score: 3)
ttctcatttgtttttg putative PPT
tgattgttttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttacttgcaactcttaatacctttttgctgtttaggaaaaatgattgttttaattgctgatgttagttctcatttgtttttgtcttttaagTGTTTGTATGGAGGAGCACCAAAGGGTCCCCAGTTGAGAGATCTAGACAGAGGAGCAGATATCGTGGTTGCTACTCCTGGCCGCTTGAATGATATTCTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT