RLG00000000706

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0000224
Physical Location & Seq
Forward (+)
4136245 .. 4138424
2180 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000000706

Sequence Viewer

Length: 1002 bp
ATGTCGAAACGTCTTCGTTCGAACGTTTCCGGTGCCCAAAAGGCTAATGTTGGTGTCACTTTGACAAAACGGCGACGTGTACAAGCAAATGAACCTTCACTTCCAAATTCTTTGCAAGATGAACTTGATGTTCCTGATATGCCTACCTCTAACAGAACTATCCAAAGGGCTATTGCTAGTACCATTATCCAAAGGCCTACTGTTGGTGACTCAATGAATGCACACGTTCAGTGCCAAACTACTAACCAGCCATCAATAAATGCTACAACTGAAGGGTTGAATGATGCTAGGACATCAGTCGATATTCAAGGATCTACTACAGTGCATGGAAAGACAAGAGGTTTAAATGCTGATAAGGTGCATGAGCAGCTTGGTACTAAAATACCTGTGACTTTCAAGAAAGAAAATGGCAGACCCATAGGTCCATATGCAGAAATGTTTGCTAATGAAATTGGATTCACCATTCGGAACCATGCACCTCTAAATGTGAAAAAATGGAAGGAAGTAAAACCAGAAGATAGGACAAGTTTGATCAAAAGAATAACTACTAAGTACGACATTGACATGTCTCTACCTTGGGTTAAGGGATATGTGAATAAATCTTTTGGAACAGTGTTTGCTAACTTCCGCTATAAGCTGAAGAAGCATTTTGAGCAATTCTCAACAAAAGAGGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAAAATGGGCTTTTCTGTGCACTTATTTTTCTAGTGAAGATTTTCAGGCTGCACAATCAGGGGAGATGCTAGGTGCAATTGAACGCTTTGAAATGGAGTACAAAAGCATTAAAAAAGGTTGGGACTTGGGAGCGAAAGAATTATGGGATCAAATGATTAAGATGCGAACTGAGACAACCCTTCATGATGGGACTCGAACTATGAATGATGATGAAATATGTGCAAAGGAGCAAGGCAAAAAGTTTGAGCAGTTCATGGCAACCTTTATGGACCAACAAGCATCAAGTTAG
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

334

Amino Acids

37.87

Weight (kDa)

9.11

Isoelectric Point (pI)

39.12

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) 420
AccB1I GGYRCC 1 cut(s) 32
AciI CCGC 1 cut(s) 628
AclI AACGTT 1 cut(s) 24
AclWI GGATC 2 cut(s) 319, 867
AcsI RAATTY 1 cut(s) 106
AcuI CTGAAG 3 cut(s) 291, 659, 729
AfaI GTAC 5 cut(s) 81, 181, 376, 554, 812
AfiI CCNNNNNNNGG 1 cut(s) 203
AflIII ACRYGT 3 cut(s) 76, 223, 564
AgsI TTSAA 5 cut(s) 280, 308, 397, 794, 803
AjiI CACGTC 1 cut(s) 77
AluBI AGCT 2 cut(s) 370, 637
AluI AGCT 2 cut(s) 370, 637
Alw21I GWGCWC 1 cut(s) 734
Alw26I GTCTC 2 cut(s) 573, 878
Alw44I GTGCAC 1 cut(s) 730
AlwI GGATC 2 cut(s) 319, 867
AoxI GGCC 1 cut(s) 194
ApaLI GTGCAC 1 cut(s) 730
ApeKI GCWGC 2 cut(s) 367, 761
ApoI RAATTY 1 cut(s) 106
Asp700I GAANNNNTTC 1 cut(s) 753
AspS9I GGNCC 2 cut(s) 422, 982
AsuHPI GGTGA 2 cut(s) 218, 451
AsuII TTCGAA 1 cut(s) 20
AvaII GGWCC 2 cut(s) 422, 982
BaeGI GKGCMC 2 cut(s) 37, 734
BanI GGYRCC 1 cut(s) 32
BbsI GAAGAC 1 cut(s) 5
Bbv12I GWGCWC 1 cut(s) 734
BbvI GCAGC 2 cut(s) 379, 748
BccI CCATC 2 cut(s) 259, 893
BceAI ACGGC 1 cut(s) 86
BclI TGATCA 1 cut(s) 531
BcoDI GTCTC 2 cut(s) 573, 878
BfaI CTAG 4 cut(s) 177, 288, 744, 782
BfmI CTRYAG 1 cut(s) 318
BglI GCCNNNNNGGC 1 cut(s) 41
BisI GCNGC 2 cut(s) 368, 762
BlsI GCNGC 2 cut(s) 369, 763
Bme18I GGWCC 2 cut(s) 422, 982
BmgBI CACGTC 1 cut(s) 77
BmgT120I GGNCC 2 cut(s) 422, 982
BmiI GGNNCC 2 cut(s) 34, 470
BmsI GCATC 3 cut(s) 274, 768, 864
BoxI GACNNNNGTC 1 cut(s) 296
BpiI GAAGAC 1 cut(s) 5
BplI GAGNNNNNCTC 2 cut(s) 644, 676
Bpu14I TTCGAA 1 cut(s) 20
BsaJI CCNNGG 1 cut(s) 575
BsaWI WCCGGW 1 cut(s) 29
Bsc4I CCNNNNNNNGG 1 cut(s) 203
BseDI CCNNGG 1 cut(s) 575
BseLI CCNNNNNNNGG 1 cut(s) 203
BseMII CTCAG 1 cut(s) 873
BseSI GKGCMC 2 cut(s) 37, 734
BseXI GCAGC 2 cut(s) 379, 748
BsgI GTGCAG 1 cut(s) 747
BshFI GGCC 1 cut(s) 196
BshNI GGYRCC 1 cut(s) 32
BsiHKAI GWGCWC 1 cut(s) 734
BsiSI CCGG 1 cut(s) 30
BslFI GGGAC 2 cut(s) 848, 916
BslI CCNNNNNNNGG 1 cut(s) 203
BsmAI GTCTC 2 cut(s) 573, 878
BsmFI GGGAC 2 cut(s) 848, 916
BsmI GAATGC 1 cut(s) 223
BsnI GGCC 1 cut(s) 196
Bsp119I TTCGAA 1 cut(s) 20
Bsp1286I GDGCHC 2 cut(s) 37, 734
Bsp1407I TGTACA 1 cut(s) 79
Bsp143I GATC 3 cut(s) 311, 531, 859
BspACI CCGC 1 cut(s) 628
BspANI GGCC 1 cut(s) 196
BspCNI CTCAG 1 cut(s) 874
BspHI TCATGA 1 cut(s) 895
BspLI GGNNCC 2 cut(s) 34, 470
BspPI GGATC 2 cut(s) 319, 867
BspT104I TTCGAA 1 cut(s) 20
BspT107I GGYRCC 1 cut(s) 32
BsrGI TGTACA 1 cut(s) 79
BssECI CCNNGG 1 cut(s) 575
BssMI GATC 3 cut(s) 311, 531, 859
BssT1I CCWWGG 1 cut(s) 575
Bst4CI ACNGT 3 cut(s) 202, 322, 613
BstAUI TGTACA 1 cut(s) 79
BstBI TTCGAA 1 cut(s) 20
BstDEI CTNAG 2 cut(s) 549, 882
BstKTI GATC 3 cut(s) 314, 534, 862
BstMAI GTCTC 2 cut(s) 573, 878
BstMBI GATC 3 cut(s) 311, 531, 859
BstMWI GCNNNNNNNGC 4 cut(s) 41, 367, 643, 652
BstNSI RCATGY 1 cut(s) 568
BstPAI GACNNNNGTC 1 cut(s) 296
BstSFI CTRYAG 1 cut(s) 318
BstSLI GKGCMC 2 cut(s) 37, 734
BstV1I GCAGC 2 cut(s) 379, 748
BstV2I GAAGAC 1 cut(s) 5
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 3 cut(s) 236, 327, 618
CciI TCATGA 1 cut(s) 895
Cfr13I GGNCC 2 cut(s) 422, 982
Csp6I GTAC 5 cut(s) 80, 180, 375, 553, 811
CviAII CATG 6 cut(s) 326, 362, 473, 565, 896, 967
CviJI RGCY 8 cut(s) 44, 170, 196, 250, 370, 637, 722, 761
CviKI_1 RGCY 8 cut(s) 44, 170, 196, 250, 370, 637, 722, 761
CviQI GTAC 5 cut(s) 80, 180, 375, 553, 811
DdeI CTNAG 2 cut(s) 549, 882
DpnI GATC 3 cut(s) 313, 533, 861
DpnII GATC 3 cut(s) 311, 531, 859
DraI TTTAAA 1 cut(s) 345
DrdI GACNNNNNNGTC 1 cut(s) 420
DseDI GACNNNNNNGTC 1 cut(s) 420
Eco130I CCWWGG 1 cut(s) 575
Eco147I AGGCCT 1 cut(s) 196
Eco47I GGWCC 2 cut(s) 422, 982
Eco57I CTGAAG 3 cut(s) 291, 659, 729
EcoT14I CCWWGG 1 cut(s) 575
ErhI CCWWGG 1 cut(s) 575
FaeI CATG 6 cut(s) 329, 365, 476, 568, 899, 970
FalI AAGNNNNNCTT 2 cut(s) 108, 140
FaqI GGGAC 2 cut(s) 848, 916
FatI CATG 6 cut(s) 325, 361, 472, 564, 895, 966
FauNDI CATATG 1 cut(s) 427
FbaI TGATCA 1 cut(s) 531
Fnu4HI GCNGC 2 cut(s) 368, 762
Fsp4HI GCNGC 2 cut(s) 368, 762
FspBI CTAG 4 cut(s) 177, 288, 744, 782
GluI GCNGC 2 cut(s) 368, 762
HaeIII GGCC 1 cut(s) 196
HapII CCGG 1 cut(s) 30
Hin1II CATG 6 cut(s) 329, 365, 476, 568, 899, 970
HinfI GANTC 3 cut(s) 209, 456, 904
HpaII CCGG 1 cut(s) 30
HphI GGTGA 2 cut(s) 218, 451
Hpy166II GTNNAC 2 cut(s) 80, 732
Hpy188I TCNGA 1 cut(s) 468
Hpy188III TCNNGA 3 cut(s) 134, 397, 896
Hpy8I GTNNAC 2 cut(s) 80, 732
Hpy99I CGWCG 1 cut(s) 78
HpyAV CCTTC 4 cut(s) 105, 266, 493, 902
HpyCH4III ACNGT 3 cut(s) 202, 322, 613
HpyCH4IV ACGT 4 cut(s) 10, 24, 76, 225
HpyF10VI GCNNNNNNNGC 4 cut(s) 41, 367, 643, 652
HpyF3I CTNAG 2 cut(s) 549, 882
HpySE526I ACGT 4 cut(s) 10, 24, 76, 225
Hsp92II CATG 6 cut(s) 329, 365, 476, 568, 899, 970
Ksp22I TGATCA 1 cut(s) 531
Kzo9I GATC 3 cut(s) 311, 531, 859
LmnI GCTCC 2 cut(s) 842, 940
LpnPI CCDG 7 cut(s) 43, 147, 260, 399, 525, 743, 756
Lsp1109I GCAGC 2 cut(s) 379, 748
LweI GCATC 3 cut(s) 274, 768, 864
MaeI CTAG 4 cut(s) 177, 288, 744, 782
MaeII ACGT 4 cut(s) 10, 24, 76, 225
MaeIII GTNAC 3 cut(s) 55, 206, 388
MalI GATC 3 cut(s) 313, 533, 861
MboI GATC 3 cut(s) 311, 531, 859
MboII GAAGA 5 cut(s) 5, 527, 652, 722, 761
MfeI CAATTG 1 cut(s) 789
MflI RGATCY 1 cut(s) 311
MhlI GDGCHC 2 cut(s) 37, 734
MluCI AATT 5 cut(s) 106, 450, 656, 789, 851
MlyI GAGTC 2 cut(s) 203, 898
MnlI CCTC 4 cut(s) 157, 332, 489, 664
MroXI GAANNNNTTC 1 cut(s) 753
MseI TTAA 5 cut(s) 344, 582, 702, 822, 870
MslI CAYNNNNRTG 2 cut(s) 563, 696
MspI CCGG 1 cut(s) 30
MunI CAATTG 1 cut(s) 789
Mva1269I GAATGC 1 cut(s) 223
MwoI GCNNNNNNNGC 4 cut(s) 41, 367, 643, 652
NdeI CATATG 1 cut(s) 427
NdeII GATC 3 cut(s) 311, 531, 859
NlaIII CATG 6 cut(s) 329, 365, 476, 568, 899, 970
NlaIV GGNNCC 2 cut(s) 34, 470
NmuCI GTSAC 3 cut(s) 55, 206, 388
NspI RCATGY 1 cut(s) 568
NspV TTCGAA 1 cut(s) 20
PagI TCATGA 1 cut(s) 895
PceI AGGCCT 1 cut(s) 196
PciI ACATGT 1 cut(s) 564
PctI GAATGC 1 cut(s) 223
PdmI GAANNNNTTC 1 cut(s) 753
PfeI GAWTC 1 cut(s) 456
PkrI GCNGC 2 cut(s) 369, 763
PleI GAGTC 2 cut(s) 203, 898
PpsI GAGTC 2 cut(s) 203, 898
PscI ACATGT 1 cut(s) 564
PshAI GACNNNNGTC 1 cut(s) 296
Psp1406I AACGTT 1 cut(s) 24
PspN4I GGNNCC 2 cut(s) 34, 470
PspPI GGNCC 2 cut(s) 422, 982
PsuI RGATCY 1 cut(s) 311
RsaI GTAC 5 cut(s) 81, 181, 376, 554, 812
RsaNI GTAC 5 cut(s) 80, 180, 375, 553, 811
RseI CAYNNNNRTG 2 cut(s) 563, 696
SaqAI TTAA 5 cut(s) 344, 582, 702, 822, 870
SatI GCNGC 2 cut(s) 368, 762
Sau3AI GATC 3 cut(s) 311, 531, 859
Sau96I GGNCC 2 cut(s) 422, 982
SchI GAGTC 2 cut(s) 203, 898
SduI GDGCHC 2 cut(s) 37, 734
SfaNI GCATC 3 cut(s) 274, 768, 864
SfcI CTRYAG 1 cut(s) 318
SfuI TTCGAA 1 cut(s) 20
SinI GGWCC 2 cut(s) 422, 982
SmiMI CAYNNNNRTG 2 cut(s) 563, 696
Sse9I AATT 5 cut(s) 106, 450, 656, 789, 851
SseBI AGGCCT 1 cut(s) 196
SsiI CCGC 1 cut(s) 628
SspMI CTAG 4 cut(s) 177, 288, 744, 782
StuI AGGCCT 1 cut(s) 196
StyI CCWWGG 1 cut(s) 575
TaaI ACNGT 3 cut(s) 202, 322, 613
TaiI ACGT 4 cut(s) 13, 27, 79, 228
TaqI TCGA 4 cut(s) 5, 20, 300, 907
TasI AATT 5 cut(s) 106, 450, 656, 789, 851
TatI WGTACW 2 cut(s) 79, 810
TfiI GAWTC 1 cut(s) 456
Tru1I TTAA 5 cut(s) 344, 582, 702, 822, 870
Tru9I TTAA 5 cut(s) 344, 582, 702, 822, 870
TscAI CASTG 3 cut(s) 236, 327, 618
TseFI GTSAC 3 cut(s) 55, 206, 388
TseI GCWGC 2 cut(s) 367, 761
Tsp45I GTSAC 3 cut(s) 55, 206, 388
TspDTI ATGAA 8 cut(s) 105, 135, 230, 462, 884, 929, 939, 955
TspRI CASTG 3 cut(s) 236, 327, 618
VneI GTGCAC 1 cut(s) 730
VpaK11BI GGWCC 2 cut(s) 422, 982
XapI RAATTY 1 cut(s) 106
XceI RCATGY 1 cut(s) 568
XmnI GAANNNNTTC 1 cut(s) 753
XspI CTAG 4 cut(s) 177, 288, 744, 782
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.