Sequence
atgc intronic sequence ATGC exonic sequence...aactgacaacaatatgatactgtttaaactttcatatatttggttagttttattagtatcatctgtcatagcttacaaaaaatcccatatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os08g05660.1 (Oryza sativa), 3'ss of exon 5
aactgacaacaatatgatactgtttaaactttcatatatttggttagttttattagt--atcatctgtcat------agcttacaaaaaatcccatatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
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------ctgctcttttctagtcactatatgtctatacatgtaagcaccaataccactggatactctgatacatgtggaacttatggaaattgcttt-tgttctta-agGTGGATGTGCCATCACTATTGTGCCATGCTGATGTCTCTTATTAGTCTAACATGGGAGATAAAGGGACAACCTGATTGTTCTCGAAAACAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os02g01720.1 (Oryza sativa), 3'ss of exon 5
-aactgacaacaatatgatactgtttaaactttcatatatttggttagttttat-tagtatcatctgtcatagcttacaaaaaatcccatat-gctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
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caaaacatcttttaatgatattcgtaaaacccatgtttcgtttgttcacttaatctagcaaaatcaattc---ctttcttagaatgcattatcatcttttcagGTGGATATACCACCACTATTTAGCAATGCTAATGGCTCTCGTTAGCCTTACATGGGAGATAAAAGGACAGCCTGATTGTTCCAGCAAGCAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G44190.3 (Glycine max), 3'ss of exon 4
-aactgacaacaatatgatactgtttaaactttcatatatttggttagttttattagtatcatctgtcatagctta-caaaaaatcccat-atgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
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gggaggacagaaattttattcggtttgcgtgttaatattgtcatcc--ttacatt-gcatattgggaaatcttttggcaaataaacttattatatggttacagGTGGATATATCATCACTATTGTGCTATGGTGATGGCCCTCGTGAGTCTCACTTGGGAGATTAAAGGACAACCAGACTGTGCAAAAAAGCAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G38960.2 (Glycine max), 3'ss of exon 5
-aactgacaacaatatgatactgtttaaactttcatatatttggttagttttattagtatcatctgtcatagctta-caaaaaatccca-tatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
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gggcggacaggaattttatttggtttgcgtgttgatattgtcatcc--ttacatt-gcatattgggaaaccttttggcaaataaacttactatatggttacagGTGGATATATCATCATTATTGTGCTATGGTGATGGCCCTCGTGAGTCTCACTTGGGAGATTAAAGGACAACCAGACTGTGCAAAAAAGCAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G10430.3 (Arabidopsis thaliana), 3'ss of exon 5
--aactgacaacaatatgatactgt-ttaaactttcatatatttggttagttttattagtatcatctgtcatagcttacaaaaaatcccatatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
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ttatctggattgacttaggtgttttgtttggctttttttgttcgaaatattctcataagttggggtgactttaacctctgaa---cctgatgtgggtcttcagGTGGCTATATCATCATTATTGTGCCATGGCTATGGCCCTTGTCAGCCTCACATGGGAAATCAAAGGTCAACCAAACTGTGTCCAGAAACAG
upper sequence: Vv02s0025g03210.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G33230.1 (Arabidopsis thaliana), 3'ss of exon 5
aactgacaacaatatgatactg-tttaaactttcatatatttggttagttttattagtatcatctgtcatagcttacaaaaaatccc--atatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
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---aggccttagtgggttgatgatttggatctgaagttatcttaatgtatatatcctctcaatcgaagatgactaaaacctcttcattgatatgcttttgcagGTGGCTTTATCATCATTATTTTGCAATGGCTATGTCCCTTGTCAGTCTCACTTGGGAAATCAAAGGTCAACCAAACTGCGTTCAGAAGCAGMapped 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|30326618|gb|CD009880.1|CD009880EST: GCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATG GTGGATATACCATCCCTATTGTGCTATGA
genomic: GCTTTGCGAGAGAACATCTTAAGAGTGAATGGAAGTGATATTCGTCCATGgtaattacat ... gctttcgcagGTGGATATACCATCACTATTGTGCTATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttattagtatcatctgtcatagcttacaaaaaatcccatatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
agcttac putative branch site (score: 3)
tgctttc putative PPT
ttacaaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aactgacaacaatatgatactgtttaaactttcatatatttggttagttttattagtatcatctgtcatagcttacaaaaaatcccatatgctttcgcagGTGGATATACCATCACTATTGTGCTATGATTATGGCTCTCGTTAGTCTCACATGGGAAATCAAGGGACAACCAAACTGCGCACAAAAGCAG
- - -acaacaa
- - - - - - - - - - - - - - - - - - - - tggttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgtcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat