Sequence
atgc intronic sequence ATGC exonic sequence...catctagctcctactggagccaaggcactaattctcatgaaccccaccaattttagctaaagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G148118_T02 (Zea mays), 3'ss of exon 5
catctagctcctactggagcca--aggcact-aattctcatgaaccccaccaattttagctaaagtactaagattactaaagcatgtttgtgtgctg-ttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
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--aggaactattagtgtaaccattaattacttggttactaactagtcagctaagctttgt--gcgtgccatattatataagttttttttggttggtgattgcagACCTATTTACAGTCAGCTTCTGTGCGTATCGAAGAAATGAGAGTGAAAAGGCGTGATACAGAGCAGTGGATGGCACATAGGCTACTCCCTGAGAATCTAA
upper sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G41780.1 (Glycine max), 3'ss of exon 5
---catctagctcctactggagccaaggcactaattctcatgaaccccaccaatttta-gctaaagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
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ttacagttgacccctgcgcgattacatgc-ccacctaaaatttgaaaagttaattttatgcaacattagttagttaactattgt---tttgaatattgttacagAAATATCTGCAATCTACAACTGTTAGAGTGGAGGAGATGAGAGTGAAGAGACAGGACGCGGAACAGTGGATGTCCCACCGTATGCTACCTGAGAACTTGA
upper sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G44430.1 (Glycine max), 3'ss of exon 5
---catctagctcctactggagccaaggcactaattctcatgaaccccaccaatttta-gctaaagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
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ttacagttgactccttcgtgattacatgc-ccacctaacatttgaaaagttaattttatgcaacattagttagctaactattgt---tttgaatattgctacagAAATATCTGCAATCTACAACTGTAAGAGTGGAGGAGATGAGAGTGAAGAGACAGGACGCAGAACAGTGGATGTCCCACCGTATGCTACCTGAGAACTTGA
upper sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA14G11500.1 (Glycine max), 3'ss of exon 3
catctagctcctactggagccaagg-cactaattctcatgaaccccaccaattttagctaaagtactaagattactaaagcatgtttgtg--tgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
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--agaattttgtgatggagtaaagaacaagcaagcaagttaagaggacaaaccttggtcattg-atatattttttgaattcatggtgttgattattgttacagAAATATCTACAATCTACCAGTGTGAGAGTTGAAGAGATGAGAGTCAAAAGGAGGGATGCAGAACAGTGGATGTCCCACCATATGCTACCAGATTTGCTGA
upper sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G02850.1 (Glycine max), 3'ss of exon 5
-----catctagctcctactggagccaaggcactaattctcatgaaccccaccaattttagctaaagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
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tttttcatcaattttgggtgttaattaaaagagtcagctacattattacattccacccttgatatatttgttgaattcatggtg-----ttgattattgttacagAAATATCTACAATCTACCAGTGTGAGAGTTGAAGAGATGAGAGTCAAAAGGAGGGATGCAGAACTGTGGATGTCCCACCGTATGCTACCAGATTTGCTGA
upper sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G06220.1 (Glycine max), 3'ss of exon 5
catctagctcctactg-gagccaaggcactaattctcatgaaccccaccaattttagcta--aagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
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-aattttcatcaattgagtgttaaaagtgttagcttcatcc-tcccacccctctcatttgttgaattcatgggttgtgtacatgtgttgat-tattcttgcagAAATATCTACAATCTACCACTGTCAGAGTTGAAGAGATGAGAATCAAAAGGAGGGATGCAGAACTGTGGATGTCCCACCGTATGCTACCTGATTTCCTGA
upper sequence: Vv15s0046g00980.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G46430.1 (Arabidopsis thaliana), 3'ss of exon 5
catctagctcctactggagccaaggcactaattctcatgaaccccaccaattttagctaaa-gtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
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---------------gtaatcatttctcttctcctt-tgagctcttaaaacaaggaatatccatatatatagtcttaaagagt-tctgtgatttgt---agAAATATTTGCAATCAACTACTGTAAGAGTTGAGGAAATGAGAGTGAAAAGGAGAGATGCAGAGCAATGGATGTCTCATCGGATGTTGCCAGACGATCTGAMapped 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|110356617|gb|EC919575.1|EC919575EST: TCTCCATCTTTGGATTGGTTTTATTTTCACTACTCATTGGAAATATGCAG AAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGG
genomic: TCTCCATCTTTGGATTGGTTTTATTTTCACTACTCATTGGAAATATGCAGgtaactgttg ... gctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGG
EST:
gi|110711239|gb|EE087524.1|EE087524EST: TCTCCATCTTTGGATTGGTTTTATTTTCACTACTCATTGGAAATATGCAG AAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTCAAAAGG
genomic: TCTCCATCTTTGGATTGGTTTTATTTTCACTACTCATTGGAAATATGCAGgtaactgttg ... gctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accaattttagctaaagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
tactaaa putative branch site (score: 1)
attactaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catctagctcctactggagccaaggcactaattctcatgaaccccaccaattttagctaaagtactaagattactaaagcatgtttgtgtgctgttacagAAATATCTGCAATCCACAACTGTTAGAATCGAAGAGATGAGAGTAAAAAGGCAGGATGCAGAGCAGTGGATGGCTCATCGATTGCTCCCTGACCCCCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - -ctcctac
- - - - - - - tggagcc
- - - - - - - - - - - - gcactaa
- - - - - - - - - - - - - - - - -ctcatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgtt