Rw1G010340

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0000224
Physical Location & Seq
Forward (+)
23047625 .. 23049027
1403 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G010340.1

Sequence Viewer

Length: 843 bp
ATGTTTGCTAATGAAATTGGATTCACCATTCGGAATCATGCACCTCTAAATGTGAAAAAATGGAAGGAAGTAAAACCAGAAGATAGGACAAGTTTGATCAAAAGAATAACTACTAAGTACGACATTGACATGTCTCTACCTTGGGTTAAGAGATATGTGAATAAATCTTTTGGAACAGTGTTTGCTAACTTCCGTTATAAGCTGAAGAAGCATTTTGAGCAATTCTCAGCAAAAGAGGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAGAATGGGCTTTTCTGTGCACTTATTTTTCTAGTGAAGATTTTCAGATTGTTTCAGAGAAAAATTCTATTAATAGGTCACATTTGAAATATCACCATAAAGCAGGGTCGAAGTCTTTTATGTCGCATCAAGAACAGATTATGCTAGGTGCAATTGAACGCTTTGAAATGGAGTACAAAAGCATTAAAAAAGGTTGGGACTTGGGAGCGAAAGAATTATGGGATCAAATGGTTAAGATGCGAACTGAGACAACCCTTCCTGATGGGACTCAAACTATGAATGATGATGAAATATGTGCAAAGGTTCTTGGAGTAAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCTAGGCCTCCACCATCTAGCACTTCTCGATCCTCACTAGATGAAATGTCTGAGAAGGATAAAGAGTTAGAAGATAAACTTGAAGAGACCCAAGATACTATAAAGGCTCAACAAGAAAAGATTGATGCACAAAACGTGCTGATCCAAGAATTGCAGGAGCAAGGCAAAAAGTTTGTGCAGTTCATGGCAACCTTTATGAACCAACAAGCATCAAGTTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF4216 DUF4218 Transpos_assoc Transposase_21 Transposase_24

Protein Analysis

280

Amino Acids

32.58

Weight (kDa)

7.68

Isoelectric Point (pI)

46.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 93 - 138 1.5e-06 Plant transposase (Ptta/En/Spm family)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000224)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g08145 FvH4_4g05492 FvH4_4g15892
pyrus_communis pycom07g09690 pycom16g18380
rosa_chinensis RchiOBHm_Chr0c17g0499961 RchiOBHm_Chr1g0345631 RchiOBHm_Chr1g0345641 RchiOBHm_Chr1g0381191 RchiOBHm_Chr2g0102381 RchiOBHm_Chr2g0106131 RchiOBHm_Chr2g0148461 RchiOBHm_Chr2g0148471 RchiOBHm_Chr2g0157121 RchiOBHm_Chr3g0476041 RchiOBHm_Chr3g0476051 RchiOBHm_Chr3g0486961 RchiOBHm_Chr3g0487551 RchiOBHm_Chr4g0385011 RchiOBHm_Chr4g0410891 RchiOBHm_Chr4g0415291 RchiOBHm_Chr4g0427801 RchiOBHm_Chr4g0427811 RchiOBHm_Chr5g0001961 RchiOBHm_Chr5g0009841 RchiOBHm_Chr5g0025231 RchiOBHm_Chr6g0272461 RchiOBHm_Chr7g0199391 RchiOBHm_Chr7g0214031
rosa_laevigata RLG00000000706 RLG00000000749 RLG00000000750 RLG00000001166 RLG00000001748 RLG00000008952 RLG00000009088 RLG00000009090 RLG00000009094 RLG00000015391 RLG00000016519 RLG00000016520 RLG00000017174 RLG00000018887 RLG00000023058 RLG00000023059 RLG00000028282 RLG00000028531 RLG00000030444 RLG00000034592 RLG00000036555
rosa_multiflora Rmu_sc0000045.1_g000015 Rmu_sc0000157.1_g000011 Rmu_sc0000493.1_g000080 Rmu_sc0001307.1_g000027 Rmu_sc0001470.1_g000010 Rmu_sc0002277.1_g000022 Rmu_sc0002365.1_g000027 Rmu_sc0002693.1_g000008 Rmu_sc0002833.1_g000051 Rmu_sc0003275.1_g000066 Rmu_sc0003286.1_g000008 Rmu_sc0004234.1_g000035 Rmu_sc0004546.1_g000001 Rmu_sc0005058.1_g000004 Rmu_sc0007025.1_g000015 Rmu_sc0008144.1_g000006 Rmu_sc0008688.1_g000001 Rmu_sc0009185.1_g000010 Rmu_sc0020638.1_g000001
rosa_roxburghii Rroxscaffold_158G00443750 Rroxscaffold_1G00001770 Rroxscaffold_1G00002620 Rroxscaffold_1G00024490 Rroxscaffold_1G00035180 Rroxscaffold_1G00035190 Rroxscaffold_1G00061370 Rroxscaffold_1G00075590 Rroxscaffold_2G00110960 Rroxscaffold_2G00121340 Rroxscaffold_2G00128850 Rroxscaffold_2G00142580 Rroxscaffold_2G00142590 Rroxscaffold_3G00223630 Rroxscaffold_3G00263220 Rroxscaffold_4G00310820 Rroxscaffold_5G00336270 Rroxscaffold_5G00336280 Rroxscaffold_5G00336320 Rroxscaffold_5G00349820 Rroxscaffold_6G00395720 Rroxscaffold_6G00395910 Rroxscaffold_6G00415660 Rroxscaffold_7G00179770 Rroxscaffold_7G00184390 Rroxscaffold_7G00189270 Rroxscaffold_7G00197240 Rroxscaffold_8G00436850 Rroxscaffold_8G00436860 Rroxscaffold_8G00436880
rosa_rugosa Rorug01G0118400 Rorug02G0048900 Rorug02G0185600 Rorug02G0222600 Rorug03G0152800 Rorug04G0047600 Rorug04G0446400 Rorug05G0118900 Rorug05G0359700 Rorug05G0374800 Rorug05G0374900 Rorug05G0375000 Rorug05G0375100 Rorug05G0418900 Rorug05G0540000 Rorug05G0540000 Rorug05G0540100 Rorug06G0358700 Rorug06G0358700 Rorug06G0408700 Rorug06G0408700 Rorug06G0408800 Rorug06G0408900 Rorug07G0203000
rosa_samantha Rh1CG190700 Rh1CG196300 Rh2BG566600 Rh2CG188900 Rh3AG090900 Rh3AG278200 Rh3BG233900 Rh3CG094300 Rh4BG202100 Rh5BG543100 Rh5CG566000 Rh5DG397500 Rh7CG432800
rosa_wichuraiana Rw0G017850 Rw1G010340 Rw1G016290 Rw2G018520 Rw3G008970 Rw5G028090 Rw5G043930 Rw6G014660 Rw6G030340 Rw7G038240

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 198
AclWI GGATC 3 cut(s) 507, 648, 760
AcsI RAATTY 1 cut(s) 340
AcuI CTGAAG 2 cut(s) 224, 294
AfaI GTAC 2 cut(s) 119, 452
AflIII ACRYGT 1 cut(s) 129
AgsI TTSAA 4 cut(s) 364, 434, 443, 707
AluBI AGCT 1 cut(s) 202
AluI AGCT 1 cut(s) 202
Alw21I GWGCWC 1 cut(s) 299
Alw26I GTCTC 3 cut(s) 138, 518, 704
Alw44I GTGCAC 1 cut(s) 295
AlwI GGATC 3 cut(s) 507, 648, 760
AoxI GGCC 2 cut(s) 622, 629
ApaLI GTGCAC 1 cut(s) 295
ApoI RAATTY 1 cut(s) 340
AseI ATTAAT 1 cut(s) 348
Asp700I GAANNNNTTC 1 cut(s) 318
AspA2I CCTAGG 1 cut(s) 626
AspS9I GGNCC 1 cut(s) 623
AsuHPI GGTGA 2 cut(s) 16, 362
AvrII CCTAGG 1 cut(s) 626
BaeGI GKGCMC 1 cut(s) 299
Bbv12I GWGCWC 1 cut(s) 299
BccI CCATC 2 cut(s) 533, 646
BclI TGATCA 1 cut(s) 96
BcoDI GTCTC 3 cut(s) 138, 518, 704
BfaI CTAG 5 cut(s) 309, 422, 627, 642, 662
BlnI CCTAGG 1 cut(s) 626
BmgT120I GGNCC 1 cut(s) 623
BmsI GCATC 3 cut(s) 412, 504, 739
BplI GAGNNNNNCTC 2 cut(s) 209, 241
BsaI GGTCTC 1 cut(s) 704
BsaJI CCNNGG 2 cut(s) 140, 626
BseDI CCNNGG 2 cut(s) 140, 626
BseMII CTCAG 3 cut(s) 240, 513, 666
BseSI GKGCMC 1 cut(s) 299
BsgI GTGCAG 1 cut(s) 821
BshFI GGCC 2 cut(s) 624, 631
BsiHKAI GWGCWC 1 cut(s) 299
BslFI GGGAC 2 cut(s) 488, 556
BsmAI GTCTC 3 cut(s) 138, 518, 704
BsmFI GGGAC 2 cut(s) 488, 556
BsnI GGCC 2 cut(s) 624, 631
Bso31I GGTCTC 1 cut(s) 704
Bsp1286I GDGCHC 1 cut(s) 299
Bsp143I GATC 4 cut(s) 96, 499, 653, 765
BspANI GGCC 2 cut(s) 624, 631
BspCNI CTCAG 3 cut(s) 239, 514, 667
BspPI GGATC 3 cut(s) 507, 648, 760
BspTNI GGTCTC 1 cut(s) 704
BssECI CCNNGG 2 cut(s) 140, 626
BssMI GATC 4 cut(s) 96, 499, 653, 765
BssT1I CCWWGG 2 cut(s) 140, 626
Bst4CI ACNGT 1 cut(s) 178
Bst6I CTCTTC 1 cut(s) 702
BstDEI CTNAG 4 cut(s) 114, 226, 522, 675
BstKTI GATC 4 cut(s) 99, 502, 656, 768
BstMAI GTCTC 3 cut(s) 138, 518, 704
BstMBI GATC 4 cut(s) 96, 499, 653, 765
BstMWI GCNNNNNNNGC 2 cut(s) 208, 217
BstNSI RCATGY 1 cut(s) 133
BstSLI GKGCMC 1 cut(s) 299
BsuRI GGCC 2 cut(s) 624, 631
BtsIMutI CAGTG 1 cut(s) 183
Cfr13I GGNCC 1 cut(s) 623
Csp6I GTAC 2 cut(s) 118, 451
CspCI CAANNNNNGTGG 2 cut(s) 595, 630
CviAII CATG 3 cut(s) 38, 130, 808
CviJI RGCY 6 cut(s) 202, 287, 600, 624, 631, 731
CviKI_1 RGCY 6 cut(s) 202, 287, 600, 624, 631, 731
CviQI GTAC 2 cut(s) 118, 451
DdeI CTNAG 4 cut(s) 114, 226, 522, 675
DpnI GATC 4 cut(s) 98, 501, 655, 767
DpnII GATC 4 cut(s) 96, 499, 653, 765
Eam1104I CTCTTC 1 cut(s) 702
EarI CTCTTC 1 cut(s) 702
Eco130I CCWWGG 2 cut(s) 140, 626
Eco147I AGGCCT 1 cut(s) 631
Eco31I GGTCTC 1 cut(s) 704
Eco57I CTGAAG 2 cut(s) 224, 294
EcoT14I CCWWGG 2 cut(s) 140, 626
ErhI CCWWGG 2 cut(s) 140, 626
FaeI CATG 3 cut(s) 41, 133, 811
FalI AAGNNNNNCTT 2 cut(s) 687, 719
FaqI GGGAC 2 cut(s) 488, 556
FatI CATG 3 cut(s) 37, 129, 807
FbaI TGATCA 1 cut(s) 96
FspBI CTAG 5 cut(s) 309, 422, 627, 642, 662
HaeIII GGCC 2 cut(s) 624, 631
Hin1II CATG 3 cut(s) 41, 133, 811
HinfI GANTC 3 cut(s) 21, 34, 544
HphI GGTGA 2 cut(s) 16, 362
Hpy166II GTNNAC 1 cut(s) 297
Hpy188I TCNGA 4 cut(s) 33, 324, 334, 676
Hpy188III TCNNGA 3 cut(s) 407, 536, 651
Hpy8I GTNNAC 1 cut(s) 297
HpyAV CCTTC 3 cut(s) 58, 542, 673
HpyCH4III ACNGT 1 cut(s) 178
HpyCH4IV ACGT 1 cut(s) 759
HpyCH4V TGCA 7 cut(s) 41, 297, 428, 575, 752, 778, 802
HpyF10VI GCNNNNNNNGC 2 cut(s) 208, 217
HpyF3I CTNAG 4 cut(s) 114, 226, 522, 675
HpySE526I ACGT 1 cut(s) 759
Hsp92II CATG 3 cut(s) 41, 133, 811
Ksp22I TGATCA 1 cut(s) 96
Kzo9I GATC 4 cut(s) 96, 499, 653, 765
LmnI GCTCC 2 cut(s) 482, 781
LpnPI CCDG 5 cut(s) 90, 366, 549, 582, 764
LweI GCATC 3 cut(s) 412, 504, 739
MaeI CTAG 5 cut(s) 309, 422, 627, 642, 662
MaeII ACGT 1 cut(s) 759
MaeIII GTNAC 1 cut(s) 354
MalI GATC 4 cut(s) 98, 501, 655, 767
MboI GATC 4 cut(s) 96, 499, 653, 765
MboII GAAGA 7 cut(s) 92, 217, 287, 290, 326, 707, 719
MfeI CAATTG 1 cut(s) 429
MhlI GDGCHC 1 cut(s) 299
MluCI AATT 6 cut(s) 15, 221, 340, 429, 491, 773
MlyI GAGTC 1 cut(s) 538
MnlI CCTC 4 cut(s) 54, 229, 642, 667
MroXI GAANNNNTTC 1 cut(s) 318
MseI TTAA 5 cut(s) 147, 267, 348, 462, 510
MslI CAYNNNNRTG 2 cut(s) 128, 261
MunI CAATTG 1 cut(s) 429
MwoI GCNNNNNNNGC 2 cut(s) 208, 217
NdeII GATC 4 cut(s) 96, 499, 653, 765
NlaIII CATG 3 cut(s) 41, 133, 811
NmuCI GTSAC 1 cut(s) 354
NspI RCATGY 1 cut(s) 133
PceI AGGCCT 1 cut(s) 631
PciI ACATGT 1 cut(s) 129
PdmI GAANNNNTTC 1 cut(s) 318
PfeI GAWTC 2 cut(s) 21, 34
PleI GAGTC 1 cut(s) 538
PpsI GAGTC 1 cut(s) 538
PscI ACATGT 1 cut(s) 129
PshBI ATTAAT 1 cut(s) 348
PsiI TTATAA 1 cut(s) 198
PspPI GGNCC 1 cut(s) 623
RsaI GTAC 2 cut(s) 119, 452
RsaNI GTAC 2 cut(s) 118, 451
RseI CAYNNNNRTG 2 cut(s) 128, 261
SaqAI TTAA 5 cut(s) 147, 267, 348, 462, 510
Sau3AI GATC 4 cut(s) 96, 499, 653, 765
Sau96I GGNCC 1 cut(s) 623
SchI GAGTC 1 cut(s) 538
SduI GDGCHC 1 cut(s) 299
SetI ASST 9 cut(s) 46, 142, 204, 356, 427, 472, 582, 762, 818
SfaNI GCATC 3 cut(s) 412, 504, 739
SmiMI CAYNNNNRTG 2 cut(s) 128, 261
Sse9I AATT 6 cut(s) 15, 221, 340, 429, 491, 773
SseBI AGGCCT 1 cut(s) 631
SspMI CTAG 5 cut(s) 309, 422, 627, 642, 662
StuI AGGCCT 1 cut(s) 631
StyI CCWWGG 2 cut(s) 140, 626
TaaI ACNGT 1 cut(s) 178
TaiI ACGT 1 cut(s) 762
TaqI TCGA 2 cut(s) 386, 652
TasI AATT 6 cut(s) 15, 221, 340, 429, 491, 773
TatI WGTACW 1 cut(s) 450
TfiI GAWTC 2 cut(s) 21, 34
Tru1I TTAA 5 cut(s) 147, 267, 348, 462, 510
Tru9I TTAA 5 cut(s) 147, 267, 348, 462, 510
TscAI CASTG 1 cut(s) 183
TseFI GTSAC 1 cut(s) 354
Tsp45I GTSAC 1 cut(s) 354
TspDTI ATGAA 6 cut(s) 27, 569, 579, 681, 796, 836
TspGWI ACGGA 1 cut(s) 182
TspRI CASTG 1 cut(s) 183
VneI GTGCAC 1 cut(s) 295
VspI ATTAAT 1 cut(s) 348
XapI RAATTY 1 cut(s) 340
XceI RCATGY 1 cut(s) 133
XmaJI CCTAGG 1 cut(s) 626
XmnI GAANNNNTTC 1 cut(s) 318
XspI CTAG 5 cut(s) 309, 422, 627, 642, 662
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.