Rroxscaffold_7G00197240

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0000224
Physical Location & Seq
Reverse (-)
41194625 .. 41231246
36622 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00197240.1

Sequence Viewer

Length: 744 bp
ATGTGTCTTCATTATCAAACTCTTCACAAGCCGTTGACTATTGCTACAACTGACGAGTTAAATGATATTGTAATGTCAGTGAATATTCAAAGGTCTACTATAGGTCTAGAAAGAGAAGTGCGGCGAAAGACAAGACGGTTGAATTCTGAGAAGCTGCATTCTCAGCTTAATGCTAAAATACCGGTCACTTTGATACAACATAATGAAAGGCCCACAGGTCCATATGCAGAATTGTTCGTGAATGATATTAGCTTAATAGTTAGGAACTTTGCACCTATGAATGTGGAAAAATGGAATGACATTGAACCAGCTTGTGTGACTAAGATGATTGAAAGAATAACCAGTAAGTTCGATATTAACATGTCTCTTCCTTGGGTCAAGAGATACGTAAACAAGATGTGTATGGCGGCATTTTGTAAATTCCGTTATAGGCTAAAGAAGTATTTTGAGAAATACTCAACAGTGGATGAAGCACGAGAAAACAAGCCTGAAGCAGTTAAAACTCAAGCAGAATGGGATTTTCTTTGTATTTGTTTTTCTAGAGAAGAGTTACAGATCAATACACAGAATGCTGACAAGAAGTTGCATTTGACATATCACCACAATGCTTGGTTGAAGTATTTCATATCCCATGAAGATGAGATTGTAAGATCTGAAGAACTGAAGGAGCATGCCAAAATAATTGAAGAACTGAAGGAGGATGCCAAAAGAATGCAAGAATTGATTGCAAAATTTCCAGCTTAA
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

247

Amino Acids

29.32

Weight (kDa)

8.63

Isoelectric Point (pI)

54.45

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
AccI GTMKAC 1 cut(s) 95
AciI CCGC 2 cut(s) 121, 407
AcsI RAATTY 3 cut(s) 142, 419, 731
AcuI CTGAAG 4 cut(s) 510, 675, 683, 713
AflIII ACRYGT 1 cut(s) 360
AgeI ACCGGT 1 cut(s) 181
AgsI TTSAA 6 cut(s) 89, 142, 305, 332, 616, 686
AluBI AGCT 5 cut(s) 154, 166, 252, 311, 740
AluI AGCT 5 cut(s) 154, 166, 252, 311, 740
Alw26I GTCTC 1 cut(s) 369
AoxI GGCC 1 cut(s) 209
ApeKI GCWGC 1 cut(s) 154
ApoI RAATTY 3 cut(s) 142, 419, 731
AsiGI ACCGGT 1 cut(s) 181
Asp700I GAANNNNTTC 1 cut(s) 620
AspS9I GGNCC 2 cut(s) 210, 218
AsuHPI GGTGA 1 cut(s) 590
AvaII GGWCC 1 cut(s) 218
BauI CACGAG 1 cut(s) 474
BbvI GCAGC 1 cut(s) 141
BceAI ACGGC 1 cut(s) 16
BcoDI GTCTC 1 cut(s) 369
BfaI CTAG 2 cut(s) 107, 540
BfmI CTRYAG 1 cut(s) 99
BglII AGATCT 1 cut(s) 650
BisI GCNGC 3 cut(s) 122, 155, 408
BlsI GCNGC 3 cut(s) 123, 156, 409
Bme18I GGWCC 1 cut(s) 218
BmgT120I GGNCC 2 cut(s) 210, 218
BmsI GCATC 1 cut(s) 691
BplI GAGNNNNNCTC 2 cut(s) 440, 472
BpuEI CTTGAG 1 cut(s) 489
BsaAI YACGTR 1 cut(s) 388
BsaJI CCNNGG 1 cut(s) 371
BsaWI WCCGGW 1 cut(s) 181
Bse118I RCCGGY 1 cut(s) 181
Bse1I ACTGG 1 cut(s) 342
BseDI CCNNGG 1 cut(s) 371
BseGI GGATG 2 cut(s) 472, 706
BseMII CTCAG 2 cut(s) 138, 176
BseNI ACTGG 1 cut(s) 342
BseXI GCAGC 1 cut(s) 141
BshFI GGCC 1 cut(s) 211
BshTI ACCGGT 1 cut(s) 181
BsiSI CCGG 1 cut(s) 182
BsmAI GTCTC 1 cut(s) 369
BsmI GAATGC 3 cut(s) 157, 574, 717
BsnI GGCC 1 cut(s) 211
Bsp143I GATC 2 cut(s) 555, 650
BspACI CCGC 2 cut(s) 121, 407
BspANI GGCC 1 cut(s) 211
BspCNI CTCAG 2 cut(s) 139, 175
BsrFI RCCGGY 1 cut(s) 181
BsrI ACTGG 1 cut(s) 342
BssAI RCCGGY 1 cut(s) 181
BssECI CCNNGG 1 cut(s) 371
BssMI GATC 2 cut(s) 555, 650
BssSI CACGAG 1 cut(s) 474
BssT1I CCWWGG 1 cut(s) 371
Bst2BI CACGAG 1 cut(s) 474
Bst4CI ACNGT 2 cut(s) 138, 463
Bst6I CTCTTC 3 cut(s) 27, 372, 540
BstBAI YACGTR 1 cut(s) 388
BstC8I GCNNGC 1 cut(s) 672
BstDEI CTNAG 3 cut(s) 147, 162, 321
BstF5I GGATG 2 cut(s) 472, 706
BstKTI GATC 2 cut(s) 558, 653
BstMAI GTCTC 1 cut(s) 369
BstMBI GATC 2 cut(s) 555, 650
BstMWI GCNNNNNNNGC 1 cut(s) 163
BstNSI RCATGY 2 cut(s) 364, 674
BstSFI CTRYAG 1 cut(s) 99
BstSNI TACGTA 1 cut(s) 388
BstV1I GCAGC 1 cut(s) 141
BstX2I RGATCY 1 cut(s) 650
BstYI RGATCY 1 cut(s) 650
BsuRI GGCC 1 cut(s) 211
BtsCI GGATG 2 cut(s) 472, 706
BtsIMutI CAGTG 2 cut(s) 84, 468
Cac8I GCNNGC 1 cut(s) 672
Cfr10I RCCGGY 1 cut(s) 181
Cfr13I GGNCC 2 cut(s) 210, 218
CspAI ACCGGT 1 cut(s) 181
CspCI CAANNNNNGTGG 2 cut(s) 590, 625
CviAII CATG 3 cut(s) 361, 632, 671
CviJI RGCY 9 cut(s) 31, 154, 166, 211, 252, 311, 433, 487, 740
CviKI_1 RGCY 9 cut(s) 31, 154, 166, 211, 252, 311, 433, 487, 740
DdeI CTNAG 3 cut(s) 147, 162, 321
DpnI GATC 2 cut(s) 557, 652
DpnII GATC 2 cut(s) 555, 650
Eam1104I CTCTTC 3 cut(s) 27, 372, 540
EarI CTCTTC 3 cut(s) 27, 372, 540
Eco105I TACGTA 1 cut(s) 388
Eco130I CCWWGG 1 cut(s) 371
Eco47I GGWCC 1 cut(s) 218
Eco57I CTGAAG 4 cut(s) 510, 675, 683, 713
EcoRI GAATTC 1 cut(s) 142
EcoT14I CCWWGG 1 cut(s) 371
ErhI CCWWGG 1 cut(s) 371
FaeI CATG 3 cut(s) 364, 635, 674
FatI CATG 3 cut(s) 360, 631, 670
FauNDI CATATG 1 cut(s) 223
FblI GTMKAC 1 cut(s) 95
Fnu4HI GCNGC 3 cut(s) 122, 155, 408
FokI GGATG 2 cut(s) 479, 713
Fsp4HI GCNGC 3 cut(s) 122, 155, 408
FspBI CTAG 2 cut(s) 107, 540
GluI GCNGC 3 cut(s) 122, 155, 408
HaeIII GGCC 1 cut(s) 211
HapII CCGG 1 cut(s) 182
Hin1II CATG 3 cut(s) 364, 635, 674
HincII GTYRAC 1 cut(s) 36
HindII GTYRAC 1 cut(s) 36
HpaII CCGG 1 cut(s) 182
HphI GGTGA 1 cut(s) 590
Hpy166II GTNNAC 3 cut(s) 36, 96, 391
Hpy188I TCNGA 2 cut(s) 148, 655
Hpy188III TCNNGA 4 cut(s) 107, 238, 379, 540
Hpy8I GTNNAC 3 cut(s) 36, 96, 391
HpyAV CCTTC 2 cut(s) 658, 688
HpyCH4III ACNGT 2 cut(s) 138, 463
HpyCH4IV ACGT 1 cut(s) 387
HpyCH4V TGCA 6 cut(s) 157, 227, 272, 586, 715, 728
HpyF10VI GCNNNNNNNGC 1 cut(s) 163
HpyF3I CTNAG 3 cut(s) 147, 162, 321
HpySE526I ACGT 1 cut(s) 387
Hsp92II CATG 3 cut(s) 364, 635, 674
Kzo9I GATC 2 cut(s) 555, 650
LmnI GCTCC 1 cut(s) 667
LpnPI CCDG 5 cut(s) 195, 201, 321, 355, 501
Lsp1109I GCAGC 1 cut(s) 141
LweI GCATC 1 cut(s) 691
MaeI CTAG 2 cut(s) 107, 540
MaeII ACGT 1 cut(s) 387
MaeIII GTNAC 3 cut(s) 184, 316, 549
MalI GATC 2 cut(s) 557, 652
MboI GATC 2 cut(s) 555, 650
MboII GAAGA 6 cut(s) 14, 359, 557, 647, 668, 698
MflI RGATCY 1 cut(s) 650
MluCI AATT 6 cut(s) 142, 230, 419, 681, 719, 731
MnlI CCTC 1 cut(s) 691
MroXI GAANNNNTTC 1 cut(s) 620
MseI TTAA 6 cut(s) 59, 168, 254, 357, 498, 742
MslI CAYNNNNRTG 2 cut(s) 603, 636
MspI CCGG 1 cut(s) 182
Mva1269I GAATGC 3 cut(s) 157, 574, 717
MwoI GCNNNNNNNGC 1 cut(s) 163
NdeI CATATG 1 cut(s) 223
NdeII GATC 2 cut(s) 555, 650
NlaIII CATG 3 cut(s) 364, 635, 674
NmuCI GTSAC 2 cut(s) 184, 316
NspI RCATGY 2 cut(s) 364, 674
PaeI GCATGC 1 cut(s) 674
PciI ACATGT 1 cut(s) 360
PctI GAATGC 3 cut(s) 157, 574, 717
PdmI GAANNNNTTC 1 cut(s) 620
PinAI ACCGGT 1 cut(s) 181
PkrI GCNGC 3 cut(s) 123, 156, 409
Ppu21I YACGTR 1 cut(s) 388
PscI ACATGT 1 cut(s) 360
PspPI GGNCC 2 cut(s) 210, 218
PsuI RGATCY 1 cut(s) 650
RseI CAYNNNNRTG 2 cut(s) 603, 636
SaqAI TTAA 6 cut(s) 59, 168, 254, 357, 498, 742
SatI GCNGC 3 cut(s) 122, 155, 408
Sau3AI GATC 2 cut(s) 555, 650
Sau96I GGNCC 2 cut(s) 210, 218
SfaNI GCATC 1 cut(s) 691
SfcI CTRYAG 1 cut(s) 99
SinI GGWCC 1 cut(s) 218
SmiMI CAYNNNNRTG 2 cut(s) 603, 636
SmlI CTYRAG 1 cut(s) 504
SmoI CTYRAG 1 cut(s) 504
SnaBI TACGTA 1 cut(s) 388
SphI GCATGC 1 cut(s) 674
Sse9I AATT 6 cut(s) 142, 230, 419, 681, 719, 731
SsiI CCGC 2 cut(s) 121, 407
SspI AATATT 1 cut(s) 85
SspMI CTAG 2 cut(s) 107, 540
StyI CCWWGG 1 cut(s) 371
TaaI ACNGT 2 cut(s) 138, 463
TaiI ACGT 1 cut(s) 390
TaqI TCGA 1 cut(s) 351
TasI AATT 6 cut(s) 142, 230, 419, 681, 719, 731
TauI GCSGC 2 cut(s) 124, 410
Tru1I TTAA 6 cut(s) 59, 168, 254, 357, 498, 742
Tru9I TTAA 6 cut(s) 59, 168, 254, 357, 498, 742
TscAI CASTG 2 cut(s) 84, 468
TseFI GTSAC 2 cut(s) 184, 316
TseI GCWGC 1 cut(s) 154
Tsp45I GTSAC 2 cut(s) 184, 316
TspDTI ATGAA 5 cut(s) 219, 293, 483, 613, 648
TspGWI ACGGA 1 cut(s) 413
TspRI CASTG 2 cut(s) 84, 468
VpaK11BI GGWCC 1 cut(s) 218
XapI RAATTY 3 cut(s) 142, 419, 731
XbaI TCTAGA 2 cut(s) 106, 539
XceI RCATGY 2 cut(s) 364, 674
XmiI GTMKAC 1 cut(s) 95
XmnI GAANNNNTTC 1 cut(s) 620
XspI CTAG 2 cut(s) 107, 540
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.