Rw6G030340

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
OG0000224
Physical Location & Seq
Forward (+)
54554890 .. 54555998
1109 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G030340.1

Sequence Viewer

Length: 633 bp
ATGTCTCTACCTTGGGTTAAGAGATATGTGAATAAATCTTTTGGAACAGTGCTTACTAATTTCCATTATAAGTTGAAGAAACATTTTGAGCAATTCTCAACAAAAGAGGAAGCATTAGAAAATAAACACAAATATGTTAAAAGTGAAGAAGAATGGGTTTTTCTGTGTACTTATTTTTCTAGTGAAGATTTTCAGAAAAATTCTATTAATAGGTCACGTTTGAAATATCACCATAAAGCAGGGTCGAAGTCTTTCATGTCGCATCAAGAACAGATTATGCTAAGTGCAATTGAACACTTTGAAATGGAGTACAAAAGCATTAAAAAAGGTTGGGATTTGGGAGCGAAAGAATTATGGGATCAAATGGTTAAGATGCGAATTGAGACAACTCTTCCTGATGGGACTCGAACCATGAATGATGATGAAATATGCGCAAAGGTTCTTGGAATAAAATCAGGCTACATCAAGGGTTCTGGTTTTGGCCCTAGGCCTCCACCATCTAGCACTTCTCGATCATCAATAGATGAAATGTCTGAGAAGAATAAAGAGTTAGAAGATAAACTTGAAGAGACCCAAGATACTATAAAGGCTCAACAAGAAAAGGTTGATGCACAAAACATGCTGATCCAATAA
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

210

Amino Acids

24.55

Weight (kDa)

7.74

Isoelectric Point (pI)

50.52

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)
AanI TTATAA 1 cut(s) 69
Acc16I TGCGCA 1 cut(s) 433
AclWI GGATC 2 cut(s) 366, 619
AcsI RAATTY 1 cut(s) 199
AfaI GTAC 2 cut(s) 169, 311
AgsI TTSAA 5 cut(s) 76, 223, 293, 302, 566
Alw26I GTCTC 3 cut(s) 9, 377, 563
AlwI GGATC 2 cut(s) 366, 619
AoxI GGCC 2 cut(s) 481, 488
ApoI RAATTY 1 cut(s) 199
AseI ATTAAT 1 cut(s) 207
Asp700I GAANNNNTTC 2 cut(s) 189, 251
AspA2I CCTAGG 1 cut(s) 485
AspLEI GCGC 1 cut(s) 434
AspS9I GGNCC 1 cut(s) 482
AsuHPI GGTGA 1 cut(s) 221
AvrII CCTAGG 1 cut(s) 485
BccI CCATC 2 cut(s) 392, 505
BcoDI GTCTC 3 cut(s) 9, 377, 563
BfaI CTAG 3 cut(s) 180, 486, 501
BlnI CCTAGG 1 cut(s) 485
BmgT120I GGNCC 1 cut(s) 482
BmsI GCATC 3 cut(s) 271, 363, 598
BplI GAGNNNNNCTC 2 cut(s) 80, 112
BsaI GGTCTC 1 cut(s) 563
BsaJI CCNNGG 2 cut(s) 11, 485
BseDI CCNNGG 2 cut(s) 11, 485
BseMII CTCAG 1 cut(s) 525
BshFI GGCC 2 cut(s) 483, 490
BslFI GGGAC 1 cut(s) 415
BsmAI GTCTC 3 cut(s) 9, 377, 563
BsmFI GGGAC 1 cut(s) 415
BsnI GGCC 2 cut(s) 483, 490
Bso31I GGTCTC 1 cut(s) 563
Bsp143I GATC 3 cut(s) 358, 512, 624
BspANI GGCC 2 cut(s) 483, 490
BspCNI CTCAG 1 cut(s) 526
BspPI GGATC 2 cut(s) 366, 619
BspTNI GGTCTC 1 cut(s) 563
BssECI CCNNGG 2 cut(s) 11, 485
BssMI GATC 3 cut(s) 358, 512, 624
BssT1I CCWWGG 2 cut(s) 11, 485
Bst4CI ACNGT 1 cut(s) 49
Bst6I CTCTTC 2 cut(s) 396, 561
BstDEI CTNAG 2 cut(s) 281, 534
BstHHI GCGC 1 cut(s) 434
BstKTI GATC 3 cut(s) 361, 515, 627
BstMAI GTCTC 3 cut(s) 9, 377, 563
BstMBI GATC 3 cut(s) 358, 512, 624
BstNSI RCATGY 1 cut(s) 622
BsuRI GGCC 2 cut(s) 483, 490
BtsIMutI CAGTG 1 cut(s) 54
CfoI GCGC 1 cut(s) 434
Cfr13I GGNCC 1 cut(s) 482
Csp6I GTAC 2 cut(s) 168, 310
CviAII CATG 3 cut(s) 256, 412, 619
CviJI RGCY 4 cut(s) 459, 483, 490, 590
CviKI_1 RGCY 4 cut(s) 459, 483, 490, 590
CviQI GTAC 2 cut(s) 168, 310
DdeI CTNAG 2 cut(s) 281, 534
DpnI GATC 3 cut(s) 360, 514, 626
DpnII GATC 3 cut(s) 358, 512, 624
Eam1104I CTCTTC 2 cut(s) 396, 561
EarI CTCTTC 2 cut(s) 396, 561
Eco130I CCWWGG 2 cut(s) 11, 485
Eco147I AGGCCT 1 cut(s) 490
Eco31I GGTCTC 1 cut(s) 563
EcoT14I CCWWGG 2 cut(s) 11, 485
ErhI CCWWGG 2 cut(s) 11, 485
FaeI CATG 3 cut(s) 259, 415, 622
FalI AAGNNNNNCTT 2 cut(s) 546, 578
FaqI GGGAC 1 cut(s) 415
FatI CATG 3 cut(s) 255, 411, 618
FspBI CTAG 3 cut(s) 180, 486, 501
FspI TGCGCA 1 cut(s) 433
GlaI GCGC 1 cut(s) 433
HaeIII GGCC 2 cut(s) 483, 490
HhaI GCGC 1 cut(s) 434
Hin1II CATG 3 cut(s) 259, 415, 622
Hin6I GCGC 1 cut(s) 432
HinP1I GCGC 1 cut(s) 432
HinfI GANTC 1 cut(s) 403
HphI GGTGA 1 cut(s) 221
Hpy166II GTNNAC 1 cut(s) 168
Hpy188I TCNGA 2 cut(s) 195, 535
Hpy188III TCNNGA 3 cut(s) 266, 395, 510
Hpy8I GTNNAC 1 cut(s) 168
HpyCH4III ACNGT 1 cut(s) 49
HpyCH4IV ACGT 1 cut(s) 217
HpyCH4V TGCA 2 cut(s) 287, 611
HpyF3I CTNAG 2 cut(s) 281, 534
HpySE526I ACGT 1 cut(s) 217
Hsp92II CATG 3 cut(s) 259, 415, 622
HspAI GCGC 1 cut(s) 432
Kzo9I GATC 3 cut(s) 358, 512, 624
LmnI GCTCC 1 cut(s) 341
LpnPI CCDG 4 cut(s) 225, 408, 441, 459
LweI GCATC 3 cut(s) 271, 363, 598
MaeI CTAG 3 cut(s) 180, 486, 501
MaeII ACGT 1 cut(s) 217
MaeIII GTNAC 1 cut(s) 213
MalI GATC 3 cut(s) 360, 514, 626
MboI GATC 3 cut(s) 358, 512, 624
MboII GAAGA 8 cut(s) 88, 158, 161, 197, 383, 550, 566, 578
MfeI CAATTG 1 cut(s) 288
MluCI AATT 6 cut(s) 58, 92, 199, 288, 350, 378
MlyI GAGTC 1 cut(s) 397
MnlI CCTC 2 cut(s) 100, 501
MroXI GAANNNNTTC 2 cut(s) 189, 251
MseI TTAA 5 cut(s) 18, 138, 207, 321, 369
MslI CAYNNNNRTG 1 cut(s) 132
MunI CAATTG 1 cut(s) 288
NdeII GATC 3 cut(s) 358, 512, 624
NlaIII CATG 3 cut(s) 259, 415, 622
NmuCI GTSAC 1 cut(s) 213
NsbI TGCGCA 1 cut(s) 433
NspI RCATGY 1 cut(s) 622
PceI AGGCCT 1 cut(s) 490
PdmI GAANNNNTTC 2 cut(s) 189, 251
PleI GAGTC 1 cut(s) 397
PpsI GAGTC 1 cut(s) 397
PshBI ATTAAT 1 cut(s) 207
PsiI TTATAA 1 cut(s) 69
PspPI GGNCC 1 cut(s) 482
PsrI GAACNNNNNNTAC 2 cut(s) 37, 69
RsaI GTAC 2 cut(s) 169, 311
RsaNI GTAC 2 cut(s) 168, 310
RseI CAYNNNNRTG 1 cut(s) 132
SaqAI TTAA 5 cut(s) 18, 138, 207, 321, 369
Sau3AI GATC 3 cut(s) 358, 512, 624
Sau96I GGNCC 1 cut(s) 482
SchI GAGTC 1 cut(s) 397
SetI ASST 6 cut(s) 13, 215, 220, 331, 441, 606
SfaNI GCATC 3 cut(s) 271, 363, 598
SmiMI CAYNNNNRTG 1 cut(s) 132
Sse9I AATT 6 cut(s) 58, 92, 199, 288, 350, 378
SseBI AGGCCT 1 cut(s) 490
SspMI CTAG 3 cut(s) 180, 486, 501
StuI AGGCCT 1 cut(s) 490
StyI CCWWGG 2 cut(s) 11, 485
TaaI ACNGT 1 cut(s) 49
TaiI ACGT 1 cut(s) 220
TaqI TCGA 3 cut(s) 245, 406, 511
TasI AATT 6 cut(s) 58, 92, 199, 288, 350, 378
TatI WGTACW 2 cut(s) 167, 309
Tru1I TTAA 5 cut(s) 18, 138, 207, 321, 369
Tru9I TTAA 5 cut(s) 18, 138, 207, 321, 369
TscAI CASTG 1 cut(s) 54
TseFI GTSAC 1 cut(s) 213
Tsp45I GTSAC 1 cut(s) 213
TspDTI ATGAA 4 cut(s) 244, 428, 438, 540
TspRI CASTG 1 cut(s) 54
VspI ATTAAT 1 cut(s) 207
XapI RAATTY 1 cut(s) 199
XceI RCATGY 1 cut(s) 622
XmaJI CCTAGG 1 cut(s) 485
XmnI GAANNNNTTC 2 cut(s) 189, 251
XspI CTAG 3 cut(s) 180, 486, 501
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.