Rmu_sc0008144.1_g000006

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0008144.1
OG0000224
Physical Location & Seq
Forward (+)
22989 .. 23807
819 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0008144.1_g000006.1.cds

Sequence Viewer

Length: 483 bp
atgtcgaaacatcttcgttcgaacgtttccggtgcccaaaaggctaatgttggtgtcactgtgacaaaacggcgacgtgtacaagcaaatgaaccttcacttccaaattctttgcaagatgaacttgatgttcctgatatgcctacgtctaatagaactacccaaagggctattgctagtaccattatccaaaggcctactgttggtgactcaatgaatgcacacattcagtgccaaactactaaccagccatcaataaatgctacagctgaagggttgaatgatgctaggacatcagtcgatatccaaggatctactacaggtccagaaaaaaaagcgcgtggaaagacaagaggtttaaatgctgataaggtgcatgagcagcttggtactaaaatacctgtgactttcaagaaagaaaatggcagacccacaggtccatatgcggaaatgtttgctaatgaaattggattaaccatttga
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

160

Amino Acids

17.28

Weight (kDa)

9.77

Isoelectric Point (pI)

37.03

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)
AasI GACNNNNNNGTC 1 cut(s) 435
AccB1I GGYRCC 1 cut(s) 32
AccII CGCG 1 cut(s) 340
AciI CCGC 1 cut(s) 446
AclI AACGTT 1 cut(s) 24
AclWI GGATC 1 cut(s) 319
AcsI RAATTY 1 cut(s) 106
AcuI CTGAAG 1 cut(s) 291
AfaI GTAC 3 cut(s) 81, 181, 391
AfiI CCNNNNNNNGG 1 cut(s) 203
AflIII ACRYGT 1 cut(s) 76
AgsI TTSAA 2 cut(s) 280, 412
AjiI CACGTC 1 cut(s) 77
AluBI AGCT 2 cut(s) 269, 385
AluI AGCT 2 cut(s) 269, 385
AlwI GGATC 1 cut(s) 319
AoxI GGCC 1 cut(s) 194
ApeKI GCWGC 1 cut(s) 382
ApoI RAATTY 1 cut(s) 106
AspLEI GCGC 1 cut(s) 340
AspS9I GGNCC 2 cut(s) 323, 437
AsuHPI GGTGA 1 cut(s) 218
AsuII TTCGAA 1 cut(s) 20
AvaII GGWCC 2 cut(s) 323, 437
BaeGI GKGCMC 1 cut(s) 37
BanI GGYRCC 1 cut(s) 32
BbvI GCAGC 1 cut(s) 394
BccI CCATC 1 cut(s) 259
BceAI ACGGC 1 cut(s) 86
BfaI CTAG 2 cut(s) 177, 288
BfmI CTRYAG 2 cut(s) 264, 318
BglI GCCNNNNNGGC 1 cut(s) 41
BisI GCNGC 1 cut(s) 383
BlsI GCNGC 1 cut(s) 384
Bme18I GGWCC 2 cut(s) 323, 437
BmgBI CACGTC 1 cut(s) 77
BmgT120I GGNCC 2 cut(s) 323, 437
BmiI GGNNCC 1 cut(s) 34
BmsI GCATC 1 cut(s) 274
BoxI GACNNNNGTC 1 cut(s) 296
Bpu14I TTCGAA 1 cut(s) 20
BsaJI CCNNGG 1 cut(s) 307
BsaWI WCCGGW 1 cut(s) 29
Bsc4I CCNNNNNNNGG 1 cut(s) 203
BseDI CCNNGG 1 cut(s) 307
BseLI CCNNNNNNNGG 1 cut(s) 203
BseSI GKGCMC 1 cut(s) 37
BseXI GCAGC 1 cut(s) 394
Bsh1236I CGCG 1 cut(s) 340
BshFI GGCC 1 cut(s) 196
BshNI GGYRCC 1 cut(s) 32
BsiSI CCGG 1 cut(s) 30
BslI CCNNNNNNNGG 1 cut(s) 203
BsmI GAATGC 1 cut(s) 223
BsnI GGCC 1 cut(s) 196
Bsp119I TTCGAA 1 cut(s) 20
Bsp1286I GDGCHC 1 cut(s) 37
Bsp1407I TGTACA 1 cut(s) 79
Bsp143I GATC 1 cut(s) 311
BspACI CCGC 1 cut(s) 446
BspANI GGCC 1 cut(s) 196
BspFNI CGCG 1 cut(s) 340
BspLI GGNNCC 1 cut(s) 34
BspPI GGATC 1 cut(s) 319
BspT104I TTCGAA 1 cut(s) 20
BspT107I GGYRCC 1 cut(s) 32
BsrGI TGTACA 1 cut(s) 79
BssECI CCNNGG 1 cut(s) 307
BssMI GATC 1 cut(s) 311
BssT1I CCWWGG 1 cut(s) 307
Bst4CI ACNGT 2 cut(s) 61, 202
BstAUI TGTACA 1 cut(s) 79
BstBI TTCGAA 1 cut(s) 20
BstFNI CGCG 1 cut(s) 340
BstHHI GCGC 1 cut(s) 340
BstKTI GATC 1 cut(s) 314
BstMBI GATC 1 cut(s) 311
BstMWI GCNNNNNNNGC 2 cut(s) 41, 382
BstPAI GACNNNNGTC 1 cut(s) 296
BstSFI CTRYAG 2 cut(s) 264, 318
BstSLI GKGCMC 1 cut(s) 37
BstUI CGCG 1 cut(s) 340
BstV1I GCAGC 1 cut(s) 394
BstX2I RGATCY 1 cut(s) 311
BstYI RGATCY 1 cut(s) 311
BsuRI GGCC 1 cut(s) 196
BtrI CACGTC 1 cut(s) 77
BtsIMutI CAGTG 2 cut(s) 57, 236
CfoI GCGC 1 cut(s) 340
Cfr13I GGNCC 2 cut(s) 323, 437
Csp6I GTAC 3 cut(s) 80, 180, 390
CviAII CATG 1 cut(s) 377
CviJI RGCY 6 cut(s) 44, 170, 196, 250, 269, 385
CviKI_1 RGCY 6 cut(s) 44, 170, 196, 250, 269, 385
CviQI GTAC 3 cut(s) 80, 180, 390
DpnI GATC 1 cut(s) 313
DpnII GATC 1 cut(s) 311
DraI TTTAAA 1 cut(s) 360
DrdI GACNNNNNNGTC 1 cut(s) 435
DseDI GACNNNNNNGTC 1 cut(s) 435
Eco130I CCWWGG 1 cut(s) 307
Eco147I AGGCCT 1 cut(s) 196
Eco32I GATATC 1 cut(s) 304
Eco47I GGWCC 2 cut(s) 323, 437
Eco57I CTGAAG 1 cut(s) 291
EcoRV GATATC 1 cut(s) 304
EcoT14I CCWWGG 1 cut(s) 307
ErhI CCWWGG 1 cut(s) 307
FaeI CATG 1 cut(s) 380
FaiI YATR 4 cut(s) 140, 378, 442, 444
FalI AAGNNNNNCTT 2 cut(s) 108, 140
FatI CATG 1 cut(s) 376
FauNDI CATATG 1 cut(s) 442
Fnu4HI GCNGC 1 cut(s) 383
Fsp4HI GCNGC 1 cut(s) 383
FspBI CTAG 2 cut(s) 177, 288
GlaI GCGC 1 cut(s) 339
GluI GCNGC 1 cut(s) 383
HaeIII GGCC 1 cut(s) 196
HapII CCGG 1 cut(s) 30
HhaI GCGC 1 cut(s) 340
Hin1II CATG 1 cut(s) 380
Hin6I GCGC 1 cut(s) 338
HinP1I GCGC 1 cut(s) 338
HinfI GANTC 1 cut(s) 209
HpaII CCGG 1 cut(s) 30
HphI GGTGA 1 cut(s) 218
Hpy166II GTNNAC 1 cut(s) 80
Hpy188III TCNNGA 3 cut(s) 134, 326, 412
Hpy8I GTNNAC 1 cut(s) 80
Hpy99I CGWCG 1 cut(s) 78
HpyAV CCTTC 2 cut(s) 105, 266
HpyCH4III ACNGT 2 cut(s) 61, 202
HpyCH4IV ACGT 3 cut(s) 24, 76, 146
HpyCH4V TGCA 3 cut(s) 115, 221, 376
HpyF10VI GCNNNNNNNGC 2 cut(s) 41, 382
HpySE526I ACGT 3 cut(s) 24, 76, 146
Hsp92II CATG 1 cut(s) 380
HspAI GCGC 1 cut(s) 338
Kzo9I GATC 1 cut(s) 311
LpnPI CCDG 7 cut(s) 43, 147, 260, 306, 339, 414, 420
Lsp1109I GCAGC 1 cut(s) 394
LweI GCATC 1 cut(s) 274
MaeI CTAG 2 cut(s) 177, 288
MaeII ACGT 3 cut(s) 24, 76, 146
MaeIII GTNAC 4 cut(s) 55, 61, 206, 403
MalI GATC 1 cut(s) 313
MboI GATC 1 cut(s) 311
MboII GAAGA 1 cut(s) 5
MflI RGATCY 1 cut(s) 311
MhlI GDGCHC 1 cut(s) 37
MluCI AATT 2 cut(s) 106, 465
MlyI GAGTC 1 cut(s) 203
MnlI CCTC 1 cut(s) 347
MseI TTAA 2 cut(s) 359, 473
MspA1I CMGCKG 1 cut(s) 269
MspI CCGG 1 cut(s) 30
Mva1269I GAATGC 1 cut(s) 223
MvnI CGCG 1 cut(s) 340
MwoI GCNNNNNNNGC 2 cut(s) 41, 382
NdeI CATATG 1 cut(s) 442
NdeII GATC 1 cut(s) 311
NlaIII CATG 1 cut(s) 380
NlaIV GGNNCC 1 cut(s) 34
NmuCI GTSAC 4 cut(s) 55, 61, 206, 403
NspV TTCGAA 1 cut(s) 20
PceI AGGCCT 1 cut(s) 196
PctI GAATGC 1 cut(s) 223
PkrI GCNGC 1 cut(s) 384
PleI GAGTC 1 cut(s) 203
PpsI GAGTC 1 cut(s) 203
PshAI GACNNNNGTC 1 cut(s) 296
Psp1406I AACGTT 1 cut(s) 24
PspN4I GGNNCC 1 cut(s) 34
PspPI GGNCC 2 cut(s) 323, 437
PsuI RGATCY 1 cut(s) 311
PvuII CAGCTG 1 cut(s) 269
RsaI GTAC 3 cut(s) 81, 181, 391
RsaNI GTAC 3 cut(s) 80, 180, 390
SaqAI TTAA 2 cut(s) 359, 473
SatI GCNGC 1 cut(s) 383
Sau3AI GATC 1 cut(s) 311
Sau96I GGNCC 2 cut(s) 323, 437
SchI GAGTC 1 cut(s) 203
SduI GDGCHC 1 cut(s) 37
SfaNI GCATC 1 cut(s) 274
SfcI CTRYAG 2 cut(s) 264, 318
SfuI TTCGAA 1 cut(s) 20
SinI GGWCC 2 cut(s) 323, 437
Sse9I AATT 2 cut(s) 106, 465
SseBI AGGCCT 1 cut(s) 196
SsiI CCGC 1 cut(s) 446
SspMI CTAG 2 cut(s) 177, 288
StuI AGGCCT 1 cut(s) 196
StyI CCWWGG 1 cut(s) 307
TaaI ACNGT 2 cut(s) 61, 202
TaiI ACGT 3 cut(s) 27, 79, 149
TaqI TCGA 3 cut(s) 5, 20, 300
TasI AATT 2 cut(s) 106, 465
TatI WGTACW 1 cut(s) 79
Tru1I TTAA 2 cut(s) 359, 473
Tru9I TTAA 2 cut(s) 359, 473
TscAI CASTG 2 cut(s) 64, 236
TseFI GTSAC 4 cut(s) 55, 61, 206, 403
TseI GCWGC 1 cut(s) 382
Tsp45I GTSAC 4 cut(s) 55, 61, 206, 403
TspDTI ATGAA 4 cut(s) 105, 135, 230, 477
TspRI CASTG 2 cut(s) 64, 236
VpaK11BI GGWCC 2 cut(s) 323, 437
XapI RAATTY 1 cut(s) 106
XspI CTAG 2 cut(s) 177, 288
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.