Rroxscaffold_1G00001770

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000224
Physical Location & Seq
Reverse (-)
1996003 .. 1997924
1922 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00001770.1

Sequence Viewer

Length: 573 bp
ATGCGCTGTTCCAATGTGTCTAACATCCAAAAGCCTACTACTGGTAATGCACCGACTAAACGCTCTCGTGTGCAAACTACCGATCAGCCTTGCCCAAATGGATCCCGTTCTACTTCAGGTAGTGCAATGAGTAAACGCTCTCGTGTGCAAACTATTGATCAACCATGCGAAAATTCTGTAGAAGATGGACTCAATTCTGCTATTGGTACCACTACAGAACGAACTACTACTGGGGTCAGAATTACTTCACGTCTTCTGCATCAAACTGCTAATGATCAACTATTGATAAATGTTACAACTGAAGAGCAAAATGATAATGTGATGTCAGCCATTCGAAACTATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAAAATTGAAGTGGATAAGTTGGTTAAAAGAATAATGTTGAAGAAACATTTTGAGAAATTTTCAACAATCGAGAAAGCAATTGAAAACAAACACGATGATGTCAAGACTCGGGAAGAATGGGAGTTTCTTTGTGCTCGTTTTTCTAGTGAAAAGTTTCAGGATGAAATGATTAAGATGCGAACTGAGACAACTTAA
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

190

Amino Acids

21.68

Weight (kDa)

9.21

Isoelectric Point (pI)

51.16

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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)
Acc65I GGTACC 1 cut(s) 206
AccB1I GGYRCC 1 cut(s) 206
AclWI GGATC 2 cut(s) 96, 109
AcsI RAATTY 2 cut(s) 172, 434
AcuI CTGAAG 2 cut(s) 99, 321
AfaI GTAC 1 cut(s) 208
AfiI CCNNNNNNNGG 1 cut(s) 41
AgsI TTSAA 4 cut(s) 386, 418, 441, 461
AjiI CACGTC 1 cut(s) 251
Alw21I GWGCWC 1 cut(s) 514
Alw26I GTCTC 1 cut(s) 557
AlwI GGATC 2 cut(s) 96, 109
Ama87I CYCGRG 1 cut(s) 486
ApoI RAATTY 2 cut(s) 172, 434
Asp700I GAANNNNTTC 2 cut(s) 244, 531
Asp718I GGTACC 1 cut(s) 206
AspLEI GCGC 1 cut(s) 6
AsuII TTCGAA 1 cut(s) 334
AvaI CYCGRG 1 cut(s) 486
BamHI GGATCC 1 cut(s) 101
BanI GGYRCC 1 cut(s) 206
BauI CACGAG 2 cut(s) 66, 141
BbsI GAAGAC 1 cut(s) 245
Bbv12I GWGCWC 1 cut(s) 514
BccI CCATC 1 cut(s) 179
BclI TGATCA 2 cut(s) 157, 274
BcoDI GTCTC 1 cut(s) 557
BfaI CTAG 1 cut(s) 522
BfmI CTRYAG 2 cut(s) 177, 213
BmeT110I CYCGRG 1 cut(s) 486
BmgBI CACGTC 1 cut(s) 251
BmiI GGNNCC 2 cut(s) 103, 208
BmrI ACTGGG 1 cut(s) 240
BmsI GCATC 2 cut(s) 268, 543
BmuI ACTGGG 1 cut(s) 240
BpiI GAAGAC 1 cut(s) 245
Bpu14I TTCGAA 1 cut(s) 334
Bsc4I CCNNNNNNNGG 1 cut(s) 41
Bse1I ACTGG 2 cut(s) 46, 235
Bse3DI GCAATG 1 cut(s) 132
BseGI GGATG 2 cut(s) 24, 544
BseLI CCNNNNNNNGG 1 cut(s) 41
BseMI GCAATG 1 cut(s) 132
BseMII CTCAG 1 cut(s) 552
BseNI ACTGG 2 cut(s) 46, 235
BshNI GGYRCC 1 cut(s) 206
BsiHKAI GWGCWC 1 cut(s) 514
BsiHKCI CYCGRG 1 cut(s) 486
BslI CCNNNNNNNGG 1 cut(s) 41
BsmAI GTCTC 1 cut(s) 557
BsoBI CYCGRG 1 cut(s) 486
Bsp119I TTCGAA 1 cut(s) 334
Bsp1286I GDGCHC 1 cut(s) 514
Bsp143I GATC 4 cut(s) 82, 101, 157, 274
BspCNI CTCAG 1 cut(s) 553
BspLI GGNNCC 2 cut(s) 103, 208
BspPI GGATC 2 cut(s) 96, 109
BspQI GCTCTTC 1 cut(s) 297
BspT104I TTCGAA 1 cut(s) 334
BspT107I GGYRCC 1 cut(s) 206
BsrDI GCAATG 1 cut(s) 132
BsrI ACTGG 2 cut(s) 46, 235
BssMI GATC 4 cut(s) 82, 101, 157, 274
BssSI CACGAG 2 cut(s) 66, 141
Bst2BI CACGAG 2 cut(s) 66, 141
Bst6I CTCTTC 1 cut(s) 297
BstBI TTCGAA 1 cut(s) 334
BstDEI CTNAG 1 cut(s) 561
BstF5I GGATG 2 cut(s) 24, 544
BstHHI GCGC 1 cut(s) 6
BstKTI GATC 4 cut(s) 85, 104, 160, 277
BstMAI GTCTC 1 cut(s) 557
BstMBI GATC 4 cut(s) 82, 101, 157, 274
BstSFI CTRYAG 2 cut(s) 177, 213
BstV2I GAAGAC 1 cut(s) 245
BstX2I RGATCY 1 cut(s) 101
BstYI RGATCY 1 cut(s) 101
BtrI CACGTC 1 cut(s) 251
BtsCI GGATG 2 cut(s) 24, 544
CfoI GCGC 1 cut(s) 6
Csp6I GTAC 1 cut(s) 207
CviAII CATG 1 cut(s) 165
CviJI RGCY 3 cut(s) 34, 88, 329
CviKI_1 RGCY 3 cut(s) 34, 88, 329
CviQI GTAC 1 cut(s) 207
DdeI CTNAG 1 cut(s) 561
DpnI GATC 4 cut(s) 84, 103, 159, 276
DpnII GATC 4 cut(s) 82, 101, 157, 274
Eam1104I CTCTTC 1 cut(s) 297
EarI CTCTTC 1 cut(s) 297
Eco57I CTGAAG 2 cut(s) 99, 321
Eco88I CYCGRG 1 cut(s) 486
FaeI CATG 1 cut(s) 168
FaiI YATR 2 cut(s) 166, 342
FatI CATG 1 cut(s) 164
FbaI TGATCA 2 cut(s) 157, 274
FokI GGATG 2 cut(s) 11, 551
FspBI CTAG 1 cut(s) 522
GlaI GCGC 1 cut(s) 5
HhaI GCGC 1 cut(s) 6
Hin1II CATG 1 cut(s) 168
Hin6I GCGC 1 cut(s) 4
HinP1I GCGC 1 cut(s) 4
HinfI GANTC 3 cut(s) 189, 373, 484
Hpy166II GTNNAC 1 cut(s) 134
Hpy188I TCNGA 2 cut(s) 239, 378
Hpy188III TCNNGA 4 cut(s) 448, 481, 488, 536
Hpy8I GTNNAC 1 cut(s) 134
HpyCH4IV ACGT 1 cut(s) 250
HpyCH4V TGCA 5 cut(s) 50, 73, 125, 148, 259
HpyF3I CTNAG 1 cut(s) 561
HpySE526I ACGT 1 cut(s) 250
Hsp92II CATG 1 cut(s) 168
HspAI GCGC 1 cut(s) 4
KpnI GGTACC 1 cut(s) 210
Ksp22I TGATCA 2 cut(s) 157, 274
Kzo9I GATC 4 cut(s) 82, 101, 157, 274
LguI GCTCTTC 1 cut(s) 297
LpnPI CCDG 4 cut(s) 27, 102, 216, 521
LweI GCATC 2 cut(s) 268, 543
MaeI CTAG 1 cut(s) 522
MaeII ACGT 1 cut(s) 250
MaeIII GTNAC 1 cut(s) 292
MalI GATC 4 cut(s) 84, 103, 159, 276
MboI GATC 4 cut(s) 82, 101, 157, 274
MboII GAAGA 7 cut(s) 194, 245, 314, 379, 382, 430, 503
MfeI CAATTG 1 cut(s) 456
MflI RGATCY 1 cut(s) 101
MhlI GDGCHC 1 cut(s) 514
MluCI AATT 6 cut(s) 172, 193, 240, 381, 434, 456
MlyI GAGTC 2 cut(s) 183, 478
MroXI GAANNNNTTC 2 cut(s) 244, 531
MseI TTAA 3 cut(s) 402, 549, 571
MslI CAYNNNNRTG 1 cut(s) 474
MunI CAATTG 1 cut(s) 456
NdeII GATC 4 cut(s) 82, 101, 157, 274
NlaIII CATG 1 cut(s) 168
NlaIV GGNNCC 2 cut(s) 103, 208
NspV TTCGAA 1 cut(s) 334
PciSI GCTCTTC 1 cut(s) 297
PdmI GAANNNNTTC 2 cut(s) 244, 531
PfeI GAWTC 1 cut(s) 373
PleI GAGTC 2 cut(s) 183, 478
PpsI GAGTC 2 cut(s) 183, 478
PspN4I GGNNCC 2 cut(s) 103, 208
PsuI RGATCY 1 cut(s) 101
RsaI GTAC 1 cut(s) 208
RsaNI GTAC 1 cut(s) 207
RseI CAYNNNNRTG 1 cut(s) 474
SapI GCTCTTC 1 cut(s) 297
SaqAI TTAA 3 cut(s) 402, 549, 571
Sau3AI GATC 4 cut(s) 82, 101, 157, 274
SchI GAGTC 2 cut(s) 183, 478
SduI GDGCHC 1 cut(s) 514
SetI ASST 2 cut(s) 121, 253
SfaNI GCATC 2 cut(s) 268, 543
SfcI CTRYAG 2 cut(s) 177, 213
SfuI TTCGAA 1 cut(s) 334
SmiMI CAYNNNNRTG 1 cut(s) 474
Sse9I AATT 6 cut(s) 172, 193, 240, 381, 434, 456
SspMI CTAG 1 cut(s) 522
TaiI ACGT 1 cut(s) 253
TaqI TCGA 2 cut(s) 334, 447
TasI AATT 6 cut(s) 172, 193, 240, 381, 434, 456
TfiI GAWTC 1 cut(s) 373
Tru1I TTAA 3 cut(s) 402, 549, 571
Tru9I TTAA 3 cut(s) 402, 549, 571
TspDTI ATGAA 1 cut(s) 555
XapI RAATTY 2 cut(s) 172, 434
XmnI GAANNNNTTC 2 cut(s) 244, 531
XspI CTAG 1 cut(s) 522
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.