Rroxscaffold_1G00002620

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000224
Physical Location & Seq
Reverse (-)
3093493 .. 3107264
13772 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00002620.1

Sequence Viewer

Length: 693 bp
ATGAGGCACCAAATATGTACCAATAATGCACGAAGTCACTGCAAGGAAAAAAGCAGTAATGCACCGAGTAAACGCTCTCGTGTGCAAACTACCGATCAGCCATGCCCAAATGGATCCCATTCTACTTCAGGTTCAACAAAAAAGGTGCGGGGAAAGACAAGAGGAGTGAATGCAGATAACGTGTTTTCTCAATTGAATGCTAAAATACTTGTTACTCTGACCGAACAAAATGGCTGGCCTACATGCCCCTATGCTGAAATGTTGGCCAATGAAATTGGTTTCACAGTTCGAAACCATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAGTTGCTTAAAAGAATAACGATTTTTTCAGAGAAGAATGCTATAAATAGGTCAAAGTTGACACATCACCACAAAGTTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAGCTGATGAAATGATTAAGATGCGAACTGAGACAACTCAACCTGATGGAACTCGGACAATAATGACAGATGAAGAAATTTGTGCAAAAGCCCTCGGAGTCAAATCGGGCTACATCAAGGGTTGTGGTTTTGGCCCTAGACCTCCACCATCAAGAGTCTCTCATTCGTTGATAAATGAAATGTCGAAAAGAACAAAGTGTTGCAAGAACAACTTCAAGAGACCCAACACCTTGTAG
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

230

Amino Acids

25.81

Weight (kDa)

9.95

Isoelectric Point (pI)

41.86

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)
AccB1I GGYRCC 1 cut(s) 6
AciI CCGC 1 cut(s) 148
AclWI GGATC 2 cut(s) 108, 121
AcoI YGGCCR 1 cut(s) 264
AcsI RAATTY 1 cut(s) 534
AcuI CTGAAG 1 cut(s) 111
AfaI GTAC 1 cut(s) 19
AflIII ACRYGT 1 cut(s) 180
AgsI TTSAA 4 cut(s) 135, 196, 341, 673
AluBI AGCT 1 cut(s) 461
AluI AGCT 1 cut(s) 461
Alw26I GTCTC 4 cut(s) 450, 482, 619, 670
AlwI GGATC 2 cut(s) 108, 121
AoxI GGCC 3 cut(s) 236, 264, 589
ApoI RAATTY 1 cut(s) 534
Asp700I GAANNNNTTC 1 cut(s) 668
AspS9I GGNCC 1 cut(s) 590
AsuHPI GGTGA 2 cut(s) 407, 440
AsuII TTCGAA 1 cut(s) 289
BalI TGGCCA 1 cut(s) 266
BamHI GGATCC 1 cut(s) 113
BanI GGYRCC 1 cut(s) 6
BauI CACGAG 1 cut(s) 78
BccI CCATC 2 cut(s) 497, 613
BcgI CGANNNNNNTGC 2 cut(s) 21, 55
BcoDI GTCTC 4 cut(s) 450, 482, 619, 670
BfaI CTAG 1 cut(s) 594
BmgT120I GGNCC 1 cut(s) 590
BmiI GGNNCC 2 cut(s) 8, 115
BmsI GCATC 1 cut(s) 468
Bpu14I TTCGAA 1 cut(s) 289
BsaI GGTCTC 1 cut(s) 670
BsaJI CCNNGG 1 cut(s) 550
BseDI CCNNGG 1 cut(s) 550
BseMII CTCAG 1 cut(s) 477
BseRI GAGGAG 1 cut(s) 177
BshFI GGCC 3 cut(s) 238, 266, 591
BshNI GGYRCC 1 cut(s) 6
BsmAI GTCTC 4 cut(s) 450, 482, 619, 670
BsmI GAATGC 3 cut(s) 175, 202, 391
BsnI GGCC 3 cut(s) 238, 266, 591
Bso31I GGTCTC 1 cut(s) 670
Bsp119I TTCGAA 1 cut(s) 289
Bsp143I GATC 2 cut(s) 94, 113
BspACI CCGC 1 cut(s) 148
BspANI GGCC 3 cut(s) 238, 266, 591
BspCNI CTCAG 1 cut(s) 478
BspLI GGNNCC 2 cut(s) 8, 115
BspPI GGATC 2 cut(s) 108, 121
BspT104I TTCGAA 1 cut(s) 289
BspT107I GGYRCC 1 cut(s) 6
BspTNI GGTCTC 1 cut(s) 670
BssECI CCNNGG 1 cut(s) 550
BssMI GATC 2 cut(s) 94, 113
BssSI CACGAG 1 cut(s) 78
Bst2BI CACGAG 1 cut(s) 78
Bst4CI ACNGT 1 cut(s) 286
BstBI TTCGAA 1 cut(s) 289
BstC8I GCNNGC 2 cut(s) 236, 459
BstDEI CTNAG 1 cut(s) 486
BstKTI GATC 2 cut(s) 97, 116
BstMAI GTCTC 4 cut(s) 450, 482, 619, 670
BstMBI GATC 2 cut(s) 94, 113
BstNSI RCATGY 1 cut(s) 246
BstX2I RGATCY 1 cut(s) 113
BstXI CCANNNNNNTGG 1 cut(s) 425
BstYI RGATCY 1 cut(s) 113
BsuRI GGCC 3 cut(s) 238, 266, 591
BtsI GCAGTG 1 cut(s) 37
BtsIMutI CAGTG 1 cut(s) 37
Cac8I GCNNGC 2 cut(s) 236, 459
Cfr13I GGNCC 1 cut(s) 590
Csp6I GTAC 1 cut(s) 18
CspCI CAANNNNNGTGG 2 cut(s) 562, 597
CviAII CATG 3 cut(s) 102, 243, 296
CviJI RGCY 8 cut(s) 100, 234, 238, 266, 461, 548, 567, 591
CviKI_1 RGCY 8 cut(s) 100, 234, 238, 266, 461, 548, 567, 591
CviQI GTAC 1 cut(s) 18
DdeI CTNAG 1 cut(s) 486
DpnI GATC 2 cut(s) 96, 115
DpnII GATC 2 cut(s) 94, 113
EaeI YGGCCR 1 cut(s) 264
Eco31I GGTCTC 1 cut(s) 670
Eco57I CTGAAG 1 cut(s) 111
FaeI CATG 3 cut(s) 105, 246, 299
FaiI YATR 7 cut(s) 16, 103, 244, 252, 297, 392, 443
FalI AAGNNNNNCTT 2 cut(s) 653, 685
FatI CATG 3 cut(s) 101, 242, 295
FauI CCCGC 1 cut(s) 141
FspBI CTAG 1 cut(s) 594
HaeIII GGCC 3 cut(s) 238, 266, 591
Hin1II CATG 3 cut(s) 105, 246, 299
HincII GTYRAC 1 cut(s) 408
HindII GTYRAC 1 cut(s) 408
HinfI GANTC 3 cut(s) 328, 555, 612
HphI GGTGA 2 cut(s) 407, 440
Hpy166II GTNNAC 2 cut(s) 71, 408
Hpy188I TCNGA 5 cut(s) 219, 333, 379, 513, 554
Hpy188III TCNNGA 2 cut(s) 609, 673
Hpy8I GTNNAC 2 cut(s) 71, 408
HpyCH4III ACNGT 1 cut(s) 286
HpyCH4IV ACGT 1 cut(s) 180
HpyCH4V TGCA 7 cut(s) 29, 42, 62, 85, 173, 542, 660
HpyF3I CTNAG 1 cut(s) 486
HpySE526I ACGT 1 cut(s) 180
Hsp92II CATG 3 cut(s) 105, 246, 299
Kzo9I GATC 2 cut(s) 94, 113
LpnPI CCDG 3 cut(s) 114, 220, 513
LweI GCATC 1 cut(s) 468
MaeI CTAG 1 cut(s) 594
MaeII ACGT 1 cut(s) 180
MaeIII GTNAC 2 cut(s) 35, 211
MalI GATC 2 cut(s) 96, 115
MboI GATC 2 cut(s) 94, 113
MboII GAAGA 4 cut(s) 334, 337, 394, 542
MfeI CAATTG 1 cut(s) 191
MflI RGATCY 1 cut(s) 113
MlsI TGGCCA 1 cut(s) 266
MluCI AATT 4 cut(s) 191, 273, 336, 534
MluNI TGGCCA 1 cut(s) 266
MlyI GAGTC 2 cut(s) 564, 621
MnlI CCTC 3 cut(s) 155, 560, 609
Mox20I TGGCCA 1 cut(s) 266
MroXI GAANNNNTTC 1 cut(s) 668
MscI TGGCCA 1 cut(s) 266
MseI TTAA 2 cut(s) 357, 474
Msp20I TGGCCA 1 cut(s) 266
MunI CAATTG 1 cut(s) 191
Mva1269I GAATGC 3 cut(s) 175, 202, 391
NdeII GATC 2 cut(s) 94, 113
NlaIII CATG 3 cut(s) 105, 246, 299
NlaIV GGNNCC 2 cut(s) 8, 115
NmuCI GTSAC 1 cut(s) 35
NspI RCATGY 1 cut(s) 246
NspV TTCGAA 1 cut(s) 289
PctI GAATGC 3 cut(s) 175, 202, 391
PdmI GAANNNNTTC 1 cut(s) 668
PfeI GAWTC 1 cut(s) 328
PleI GAGTC 2 cut(s) 563, 620
PpsI GAGTC 2 cut(s) 563, 620
PspN4I GGNNCC 2 cut(s) 8, 115
PspPI GGNCC 1 cut(s) 590
PsuI RGATCY 1 cut(s) 113
RsaI GTAC 1 cut(s) 19
RsaNI GTAC 1 cut(s) 18
SaqAI TTAA 2 cut(s) 357, 474
Sau3AI GATC 2 cut(s) 94, 113
Sau96I GGNCC 1 cut(s) 590
SchI GAGTC 2 cut(s) 564, 621
SetI ASST 8 cut(s) 133, 147, 183, 401, 463, 502, 601, 689
SfaNI GCATC 1 cut(s) 468
SfuI TTCGAA 1 cut(s) 289
Sse9I AATT 4 cut(s) 191, 273, 336, 534
SsiI CCGC 1 cut(s) 148
SspMI CTAG 1 cut(s) 594
TaaI ACNGT 1 cut(s) 286
TaiI ACGT 1 cut(s) 183
TaqI TCGA 2 cut(s) 289, 641
TaqII GACCGA 1 cut(s) 236
TasI AATT 4 cut(s) 191, 273, 336, 534
TfiI GAWTC 1 cut(s) 328
Tru1I TTAA 2 cut(s) 357, 474
Tru9I TTAA 2 cut(s) 357, 474
TscAI CASTG 1 cut(s) 44
TseFI GTSAC 1 cut(s) 35
Tsp45I GTSAC 1 cut(s) 35
TspDTI ATGAA 4 cut(s) 285, 480, 543, 648
TspRI CASTG 1 cut(s) 44
XapI RAATTY 1 cut(s) 534
XceI RCATGY 1 cut(s) 246
XmnI GAANNNNTTC 1 cut(s) 668
XspI CTAG 1 cut(s) 594
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.