Rroxscaffold_2G00121340

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000224
Physical Location & Seq
Reverse (-)
53917685 .. 53918864
1180 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00121340.1

Sequence Viewer

Length: 732 bp
ATGTCTCTACCTTGGGTTAAGAGATATGTGCATAAATCTTTTGGAACAGTGTTCGCTAACTTCCGTTATAAGCTGAAGAAGCATTTTGAGCAATTCTCAACAAAAGAGGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAGAATGGGCTTTTCTGTGCACCTATTTTTCTAGTGAAGATTTTCAGATTGTTTCAGAGAAAAATTCTATTAATAGGTCACGTTTGAAATATCACCATAAAGCAGGGTCGAAGTCTTTTATGTCGCATCAAGAACAGATTGCTGCACAATCAGGGGAGATGCTAGGTGCAATTGAACGCTTTGAAATGGAGTACAAAAGCATTAAAAAAGGTTGGGACTTGGGAGCGAAAGAATTATGGGATCAAATGGTTAAGATGCGAACTGAGACAACCCTTCTTGATGGGACTCGAACTATGAATGATGATGAAATATGTGCAAAGGTTCTTGGAGTAAAATCAGGCTACATCAAGGGTTGTGGTTTTGGCCCCAGGCCTCCACCATCAAGCACTTCTCGATCGTCAATAGATGAAATGTCCGAGAAGAATAAAGAGTTAGAAGATAAACTTGAAGAGACCCAAGATACTATAAAGGCTCAACAAGAAAAGATTGATGCACAAAACGTGCTGATCCAAGAATTGCAGGAGCAAGGCAAAAAGTTTGAGCAGTTCATGGCAACCTTTATGAACCAACAAGCATCAAGTTAG
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

243

Amino Acids

28.17

Weight (kDa)

6.62

Isoelectric Point (pI)

51.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 50 - 172 8.9e-09 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
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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) 69
AclWI GGATC 2 cut(s) 396, 649
AcsI RAATTY 1 cut(s) 211
AcuI CTGAAG 2 cut(s) 95, 165
AfaI GTAC 1 cut(s) 341
AgsI TTSAA 4 cut(s) 235, 323, 332, 596
AjnI CCWGG 1 cut(s) 515
AluBI AGCT 1 cut(s) 73
AluI AGCT 1 cut(s) 73
Alw21I GWGCWC 1 cut(s) 170
Alw26I GTCTC 3 cut(s) 9, 407, 593
Alw44I GTGCAC 1 cut(s) 166
AlwI GGATC 2 cut(s) 396, 649
AoxI GGCC 2 cut(s) 511, 518
ApaLI GTGCAC 1 cut(s) 166
ApeKI GCWGC 1 cut(s) 290
ApoI RAATTY 1 cut(s) 211
AseI ATTAAT 1 cut(s) 219
Asp700I GAANNNNTTC 1 cut(s) 189
AspS9I GGNCC 1 cut(s) 512
AsuHPI GGTGA 1 cut(s) 233
BaeGI GKGCMC 1 cut(s) 170
Bbv12I GWGCWC 1 cut(s) 170
BbvI GCAGC 1 cut(s) 277
BccI CCATC 2 cut(s) 422, 535
BciT130I CCWGG 1 cut(s) 517
BcoDI GTCTC 3 cut(s) 9, 407, 593
BfaI CTAG 2 cut(s) 180, 311
BisI GCNGC 1 cut(s) 291
BlsI GCNGC 1 cut(s) 292
Bme1390I CCNGG 1 cut(s) 517
BmgT120I GGNCC 1 cut(s) 512
BmiI GGNNCC 1 cut(s) 514
BmrFI CCNGG 1 cut(s) 517
BmsI GCATC 4 cut(s) 283, 297, 393, 628
BplI GAGNNNNNCTC 2 cut(s) 80, 112
BsaI GGTCTC 1 cut(s) 593
BsaJI CCNNGG 2 cut(s) 11, 515
BseBI CCWGG 1 cut(s) 517
BseDI CCNNGG 2 cut(s) 11, 515
BseMII CTCAG 1 cut(s) 402
BseSI GKGCMC 1 cut(s) 170
BseXI GCAGC 1 cut(s) 277
BsgI GTGCAG 1 cut(s) 276
Bsh1285I CGRYCG 1 cut(s) 545
BshFI GGCC 2 cut(s) 513, 520
BsiEI CGRYCG 1 cut(s) 545
BsiHKAI GWGCWC 1 cut(s) 170
BslFI GGGAC 2 cut(s) 377, 445
BsmAI GTCTC 3 cut(s) 9, 407, 593
BsmFI GGGAC 2 cut(s) 377, 445
BsnI GGCC 2 cut(s) 513, 520
Bso31I GGTCTC 1 cut(s) 593
Bsp1286I GDGCHC 1 cut(s) 170
Bsp143I GATC 3 cut(s) 388, 542, 654
BspANI GGCC 2 cut(s) 513, 520
BspCNI CTCAG 1 cut(s) 403
BspLI GGNNCC 1 cut(s) 514
BspPI GGATC 2 cut(s) 396, 649
BspTNI GGTCTC 1 cut(s) 593
BssECI CCNNGG 2 cut(s) 11, 515
BssMI GATC 3 cut(s) 388, 542, 654
BssT1I CCWWGG 1 cut(s) 11
Bst2UI CCWGG 1 cut(s) 517
Bst4CI ACNGT 1 cut(s) 49
Bst6I CTCTTC 1 cut(s) 591
BstDEI CTNAG 1 cut(s) 411
BstKTI GATC 3 cut(s) 391, 545, 657
BstMAI GTCTC 3 cut(s) 9, 407, 593
BstMBI GATC 3 cut(s) 388, 542, 654
BstMCI CGRYCG 1 cut(s) 545
BstMWI GCNNNNNNNGC 2 cut(s) 79, 88
BstNI CCWGG 1 cut(s) 517
BstSCI CCNGG 1 cut(s) 515
BstSLI GKGCMC 1 cut(s) 170
BstV1I GCAGC 1 cut(s) 277
BsuRI GGCC 2 cut(s) 513, 520
BtsIMutI CAGTG 1 cut(s) 54
Cfr13I GGNCC 1 cut(s) 512
Csp6I GTAC 1 cut(s) 340
CspCI CAANNNNNGTGG 2 cut(s) 484, 519
CviAII CATG 1 cut(s) 697
CviJI RGCY 6 cut(s) 73, 158, 489, 513, 520, 620
CviKI_1 RGCY 6 cut(s) 73, 158, 489, 513, 520, 620
CviQI GTAC 1 cut(s) 340
DdeI CTNAG 1 cut(s) 411
DpnI GATC 3 cut(s) 390, 544, 656
DpnII GATC 3 cut(s) 388, 542, 654
Eam1104I CTCTTC 1 cut(s) 591
EarI CTCTTC 1 cut(s) 591
Eco130I CCWWGG 1 cut(s) 11
Eco147I AGGCCT 1 cut(s) 520
Eco31I GGTCTC 1 cut(s) 593
Eco57I CTGAAG 2 cut(s) 95, 165
EcoRII CCWGG 1 cut(s) 515
EcoT14I CCWWGG 1 cut(s) 11
ErhI CCWWGG 1 cut(s) 11
FaeI CATG 1 cut(s) 700
FalI AAGNNNNNCTT 2 cut(s) 576, 608
FaqI GGGAC 2 cut(s) 377, 445
FatI CATG 1 cut(s) 696
Fnu4HI GCNGC 1 cut(s) 291
Fsp4HI GCNGC 1 cut(s) 291
FspBI CTAG 2 cut(s) 180, 311
GluI GCNGC 1 cut(s) 291
HaeIII GGCC 2 cut(s) 513, 520
Hin1II CATG 1 cut(s) 700
HinfI GANTC 1 cut(s) 433
HphI GGTGA 1 cut(s) 233
Hpy166II GTNNAC 1 cut(s) 168
Hpy188I TCNGA 3 cut(s) 195, 205, 565
Hpy188III TCNNGA 3 cut(s) 278, 425, 540
Hpy8I GTNNAC 1 cut(s) 168
HpyAV CCTTC 1 cut(s) 431
HpyCH4III ACNGT 1 cut(s) 49
HpyCH4IV ACGT 2 cut(s) 229, 648
HpyCH4V TGCA 7 cut(s) 31, 168, 293, 317, 464, 641, 667
HpyF10VI GCNNNNNNNGC 2 cut(s) 79, 88
HpyF3I CTNAG 1 cut(s) 411
HpySE526I ACGT 2 cut(s) 229, 648
Hsp92II CATG 1 cut(s) 700
Kzo9I GATC 3 cut(s) 388, 542, 654
LmnI GCTCC 2 cut(s) 371, 670
LpnPI CCDG 6 cut(s) 237, 285, 471, 502, 529, 653
Lsp1109I GCAGC 1 cut(s) 277
LweI GCATC 4 cut(s) 283, 297, 393, 628
MaeI CTAG 2 cut(s) 180, 311
MaeII ACGT 2 cut(s) 229, 648
MaeIII GTNAC 1 cut(s) 225
MalI GATC 3 cut(s) 390, 544, 656
MboI GATC 3 cut(s) 388, 542, 654
MboII GAAGA 7 cut(s) 88, 158, 161, 197, 580, 596, 608
MfeI CAATTG 1 cut(s) 318
MhlI GDGCHC 1 cut(s) 170
MluCI AATT 5 cut(s) 92, 211, 318, 380, 662
MlyI GAGTC 1 cut(s) 427
MnlI CCTC 2 cut(s) 100, 531
MroXI GAANNNNTTC 1 cut(s) 189
MseI TTAA 5 cut(s) 18, 138, 219, 351, 399
MslI CAYNNNNRTG 1 cut(s) 132
MspR9I CCNGG 1 cut(s) 517
MunI CAATTG 1 cut(s) 318
MvaI CCWGG 1 cut(s) 517
MwoI GCNNNNNNNGC 2 cut(s) 79, 88
NdeII GATC 3 cut(s) 388, 542, 654
NlaIII CATG 1 cut(s) 700
NlaIV GGNNCC 1 cut(s) 514
NmuCI GTSAC 1 cut(s) 225
PceI AGGCCT 1 cut(s) 520
PdmI GAANNNNTTC 1 cut(s) 189
PkrI GCNGC 1 cut(s) 292
Ple19I CGATCG 1 cut(s) 545
PleI GAGTC 1 cut(s) 427
PpsI GAGTC 1 cut(s) 427
PshBI ATTAAT 1 cut(s) 219
PsiI TTATAA 1 cut(s) 69
Psp6I CCWGG 1 cut(s) 515
PspGI CCWGG 1 cut(s) 515
PspN4I GGNNCC 1 cut(s) 514
PspPI GGNCC 1 cut(s) 512
PvuI CGATCG 1 cut(s) 545
RsaI GTAC 1 cut(s) 341
RsaNI GTAC 1 cut(s) 340
RseI CAYNNNNRTG 1 cut(s) 132
SaqAI TTAA 5 cut(s) 18, 138, 219, 351, 399
SatI GCNGC 1 cut(s) 291
Sau3AI GATC 3 cut(s) 388, 542, 654
Sau96I GGNCC 1 cut(s) 512
SchI GAGTC 1 cut(s) 427
ScrFI CCNGG 1 cut(s) 517
SduI GDGCHC 1 cut(s) 170
SfaNI GCATC 4 cut(s) 283, 297, 393, 628
SmiMI CAYNNNNRTG 1 cut(s) 132
Sse9I AATT 5 cut(s) 92, 211, 318, 380, 662
SseBI AGGCCT 1 cut(s) 520
SspMI CTAG 2 cut(s) 180, 311
StuI AGGCCT 1 cut(s) 520
StyD4I CCNGG 1 cut(s) 515
StyI CCWWGG 1 cut(s) 11
TaaI ACNGT 1 cut(s) 49
TaiI ACGT 2 cut(s) 232, 651
TaqI TCGA 3 cut(s) 257, 436, 541
TasI AATT 5 cut(s) 92, 211, 318, 380, 662
TatI WGTACW 1 cut(s) 339
Tru1I TTAA 5 cut(s) 18, 138, 219, 351, 399
Tru9I TTAA 5 cut(s) 18, 138, 219, 351, 399
TscAI CASTG 1 cut(s) 54
TseFI GTSAC 1 cut(s) 225
TseI GCWGC 1 cut(s) 290
Tsp45I GTSAC 1 cut(s) 225
TspDTI ATGAA 5 cut(s) 458, 468, 570, 685, 725
TspGWI ACGGA 1 cut(s) 53
TspRI CASTG 1 cut(s) 54
VneI GTGCAC 1 cut(s) 166
VspI ATTAAT 1 cut(s) 219
XapI RAATTY 1 cut(s) 211
XmnI GAANNNNTTC 1 cut(s) 189
XspI CTAG 2 cut(s) 180, 311
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.