Sequence
atgc intronic sequence ATGC exonic sequence...tgttcagtagtgaaaattttcggctaatatagaatatgtttagtggagaattggtactcacaatgtcttttaactgtttttagcccttgatttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g10784.1 (Oryza sativa), 3'ss of exon 4
tgttcagtagtgaaaattttcggctaatatagaatatgtttagtggagaattggtactcacaatgtcttttaactgtttttagcccttgatt---tttcc----cagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG
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tttcctgcactg----ttgtcttttaatatactatgtctataatcgc---ccagtacatatccttgctctaaggaggatatggtttctaactaacttaccaaattagTGTGAAGCCGTTGGAAGAGTGGCCGACATCATACAAATTCCAGCTTTCCTCTGTCGCCAG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G168510_T02 (Zea mays), 3'ss of exon 5
-tgttcagta---gtgaaaattttcggctaatatagaatatgtttagtggagaattggtactcacaatgtcttttaactgtttttagcccttgatttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG
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ctgcccattgcttgtgttgccctttatcaaat-caaaatct-cctactgcatattgtttgctatgaagggata--gatgattcctaattatttgattaaatcagTGTGAAGCTGTTGGAAGAGTTGCTGACATCATACAGATTCCAGCCTTCCTCTGTCGCCAG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G48370.1 (Glycine max), 3'ss of exon 4
----tgttcagt-agtgaaaattttcggctaatatagaatatgtttagtggagaattggtactcacaatgtcttttaactgtttttagcccttgatttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG-
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aattggttcttccagtgtatacttgtcattggaatgtggtattgatagttcagattcta-actcatggtctgcctttggcacgttta-----tattttttgccagtGTGAAGCAGTTGGCAGAGTTGCAGATATCATTCAGATTCCAGCATTCTTGTGTCGCCAAG
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G38010.1 (Glycine max), 3'ss of exon 5
------tgttcagtagtgaaaattttcggctaatatagaatatgtttagtggagaattggtactcacaatgtcttttaactgtttttagcccttgatttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG
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aaattgattcttccagtgtatacttaggaatggagtatggtattgatatttcagattcta-actcatgatctgcctttgacgcattta-----tattttttgccagTGTGAAGCAGTTGGCAGAGTAGCAGATATCATTCAGATTCCAGCATTCTTGTGTCGCCAA
upper sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G79500.2 (Arabidopsis thaliana), 3'ss of exon 5
tgttcagtagtgaaaattttcggctaatatagaatatgttta-gtggagaattggtactcacaatgtcttt--taactgtt--tttagcccttgatttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG
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-----------------------gtataaatgaacgtaatcacataaaagattgagatttagcaagtctttagtaccttctaatgtgtgattttattttccttagTGTGAAGCAGTTGGCAAGGTTGCAGATATAATTCAGATTCCAGCATTCTTATGTCGCCAGMapped 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|110708160|gb|EE085385.1|EE085385EST: AAGTAGCATATGACATCCCCATAGTGACTGATGTACATGAAATTGAACAG TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTC
genomic: AAGTAGCATATGACATCCCCATAGTGACTGATGTACATGAAATTGAACAGgtaattatct ... tttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTC
EST:
gi|30252416|gb|CB969967.1|CB969967EST: AAGTAGCATATGACATCCCCATAGTGACTGATGTACATGAAATTGAACAG TGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTC
genomic: AAGTAGCATATGACATCCCCATAGTGACTGATGTACATGAAATTGAACAGgtaattatct ... tttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaattggtactcacaatgtcttttaactgtttttagcccttgatttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG
cccttgatttttccc CT-rich tract
ttttaactgttttta 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttcagtagtgaaaattttcggctaatatagaatatgtttagtggagaattggtactcacaatgtcttttaactgtttttagcccttgatttttcccagTGTGAACCAGTTGGCAGAGTTGCAGACATCATTCAGATTCCAGCTTTCCTCTGTCGTCAG
- - - - - -gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttga