Sequence
atgc intronic sequence ATGC exonic sequence...tgcatgtctctatgtttgtgcacttcttgtgtataactaaagccgcatgcaagtagcatagttagatttcaggagtataattctctattcttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g71320.1 (Oryza sativa), 3'ss of exon 4
tgcatgtctctatgtt-tgtgcacttcttgtgtataactaaagccgcatgcaagtagcatagttagatttcag-gagtataattctctattcttttaagc--agGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
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---ttggcccaatgaagtataatgccattgtgttatatttttattatatttt-gttgaggagtgccttttaaatgattattcttttatgctactttgtacttagGTGAATGATACAGTGGGGACATTAGCTCTAGGGCATTACTATGATGAAGACACAGTGGCTGCTGTGATAATTGGGTCTGGCACCAACGCTTGCTACATTG
upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os05g31110.1 (Oryza sativa), 3'ss of exon 4
tgcatgtctctatgtttgtgcacttcttgtgtataactaaagccgcatgcaagt-agcatagttagatttcagg--agtataattctctattcttt--taagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
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--gatccaaaaatgctt-tccaagtgtgatgcatg--taatctcactagtagattaaaatacattcatttctggttgattctacaatgtattgttcaacaaatagGTGAACAATACTGTGGGGACATTAGCTCTCGGGCATTATTATGATGATGACACAGTAGCTGCTGTGATTATTGGAGCTGGCACCAATGCTTGCTATATTG
upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G467069_T02 (Zea mays), 3'ss of exon 4
tgcatgtctctatgtttgtgcacttct-tgtgtataactaaagccgcatgcaagtagcatagttagatttcaggagtataattc---tctattcttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
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-atat-tctcaactagcatattcttctatgattattgctttttaatcat-cgtttagctttaacaccttttaaagacttacgttagttctatt-ttctacttagGTGAATGACACCGTGGGGACATTAGCTCTAGGACATTATCACGATGAGGATACAGTGGCTGCTGTGATCATTGGTGCTGGCACCAATGCTTGCTATATTG
upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G43650.1 (Glycine max), 3'ss of exon 4
tgcatgtctctatgtttgtgcacttcttgtgtataactaaagccgcatgcaa-gtagcatagttagatttcaggagtataattctctattc-ttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
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--ttttttgggggggggggggagtgtgctggcataatttttttttgtttcattgtattactgactattatgtgaaacatgatatcatgttcattttcaacagGTTAATGACACTGTTGGAACATTAGCAGTTGGACATTATCATGATCCAGATACTGTTGCAGCAATTATAATTGGTACTGGTACAAATGCCTGCTATTTGG
upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 4
---tgcatgtctctatgtttgtgcacttcttgtgtataactaaagccgcatgcaagtagcatagttagatttcaggagtataattctctattc-ttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
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aagtccctaatttcatacttggaacactgtcatgtataa-taaactctttt---agtttcattgtattacttgagaaacatgattgtgtgttcattttaatcagGCCAATGATACTGTTGGAACATTAGCTCTTGGACATTATAATGACTCAGATACTGTTGCTTCCGTAATAATTGGCACTGGTACCAATGCTTGCTATTTGG
upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G02450.1 (Glycine max), 3'ss of exon 4
----tgcatgtctctatgt-ttgtgcacttcttgtgtataactaaagccgcatgcaagtagcatagttagatttcaggagtataattctctattc-ttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
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cttattaggaacagtgtgcattgtcttattgtcgtgtataa-taaatccttttg---gtttcattgtattactt--gaaacatgattttgtgttcattttaatcagGTCAATGATACTGTTGGAACATTAGCTCTTGGACATTATCATGACTCAGATACTGTTGCTTCTGTAATAATTGGCACTGGTACCAATGCTTGCTATTTGG
upper sequence: Vv06s0061g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G01820.1 (Glycine max), 3'ss of exon 4
------tgcatgtctctatgtttgtgcacttcttgtgtataactaaagccgcatgcaagtagcatagttagatttcaggagtataattctctattc-ttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
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gggggtggggggagtgcactgacataaatcctttttgttttattgtgttagtatttactaattattgcgtga-------aacatgatatcatgttcattataaacagGTTAATGACACTGTTGGAACATTAGCAGTTGGACATTATCATGATCCAGATACCGTTGCAGCTATTATAATTGGTACTGGTACAAATGCCTGCTATTGGGMapped 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|161721153|gb|FC070389.1|FC070389EST: TACAACATGCAATGACAAGAAATGGACTAAATATGCGAGTAGCATTTCTG GTAAATGATACTGTGGGGACATTTAGCTCTTGGAC
genomic: TACAACATGCAATGACAAGAAATGGACTAGATATGCGAGTAGCAGTTCTGgtaggctctt ... ttttaagcagGTAAATGATACTGTGGGGACATT-AGCTCTTGGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgcaagtagcatagttagatttcaggagtataattctctattcttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
ttctctattctttt CT-rich tract
tataattctctattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcatgtctctatgtttgtgcacttcttgtgtataactaaagccgcatgcaagtagcatagttagatttcaggagtataattctctattcttttaagcagGTAAATGATACTGTGGGGACATTAGCTCTTGGACATTATAATGATCCAGACACTGTTGCTGCAGTGATAATTGGGACAGGTACAAATGCCTGCTATTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
-gcatgtc
- - - - - - - tttgtgc
- - - - - - - - - - - cttcttg
- - - - - - - - - - - - - - - - - aactaaa
- - - - - - - - - - - - - - - - - - - - - - gcatgca