Rroxscaffold_1G00035190

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000224
Physical Location & Seq
Reverse (-)
51244092 .. 51247927
3836 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00035190.1

Sequence Viewer

Length: 333 bp
ATGCAGACAAAGTACGACATTGACATGTCCCTACCTTGGGTTAAGAGATATGTGAATAAATCTTTTGGAACAGTGTTTGCTAACTTCAGTTATAAGTTGAAGAAGCATTTTGAGCAATTCTCAACAAAAGAGGAAGCATTAGAAAATAAACACAAAGATGTTAAAACTGAAGAAGAATGGGCTTTTCTCATTGTTTCAGAGAAAAATTCTATTAATAGGTCACGTTTGAAATATCACCATAAAGCATGGTCGAAGTCTTTTATGTCGCATCAAGAACAGATTGATCAAATGGTTAAGATGCGAACCGAGACAACCCTTCCCGATGGGACTTGA
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

110

Amino Acids

13.22

Weight (kDa)

9.27

Isoelectric Point (pI)

49.44

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) 93
AcsI RAATTY 1 cut(s) 205
AcuI CTGAAG 2 cut(s) 70, 189
AfaI GTAC 1 cut(s) 14
AfiI CCNNNNNNNGG 2 cut(s) 36, 37
AflIII ACRYGT 1 cut(s) 24
AgsI TTSAA 2 cut(s) 100, 229
Alw26I GTCTC 1 cut(s) 302
ApoI RAATTY 1 cut(s) 205
AseI ATTAAT 1 cut(s) 213
AsuHPI GGTGA 1 cut(s) 227
BccI CCATC 1 cut(s) 317
BclI TGATCA 1 cut(s) 283
BcoDI GTCTC 1 cut(s) 302
BmsI GCATC 2 cut(s) 277, 288
BplI GAGNNNNNCTC 2 cut(s) 104, 136
BsaJI CCNNGG 1 cut(s) 35
Bsc4I CCNNNNNNNGG 2 cut(s) 36, 37
BseDI CCNNGG 1 cut(s) 35
BseLI CCNNNNNNNGG 2 cut(s) 36, 37
BslFI GGGAC 1 cut(s) 13
BslI CCNNNNNNNGG 2 cut(s) 36, 37
BsmAI GTCTC 1 cut(s) 302
BsmFI GGGAC 1 cut(s) 13
Bsp143I GATC 1 cut(s) 283
BssECI CCNNGG 1 cut(s) 35
BssMI GATC 1 cut(s) 283
BssT1I CCWWGG 1 cut(s) 35
Bst4CI ACNGT 1 cut(s) 73
BstKTI GATC 1 cut(s) 286
BstMAI GTCTC 1 cut(s) 302
BstMBI GATC 1 cut(s) 283
BstMWI GCNNNNNNNGC 1 cut(s) 112
BstNSI RCATGY 1 cut(s) 28
BtsIMutI CAGTG 1 cut(s) 78
Csp6I GTAC 1 cut(s) 13
CviAII CATG 2 cut(s) 25, 246
CviJI RGCY 1 cut(s) 182
CviKI_1 RGCY 1 cut(s) 182
CviQI GTAC 1 cut(s) 13
DpnI GATC 1 cut(s) 285
DpnII GATC 1 cut(s) 283
Eco130I CCWWGG 1 cut(s) 35
Eco57I CTGAAG 2 cut(s) 70, 189
EcoT14I CCWWGG 1 cut(s) 35
ErhI CCWWGG 1 cut(s) 35
FaeI CATG 2 cut(s) 28, 249
FaiI YATR 6 cut(s) 26, 51, 93, 240, 247, 263
FaqI GGGAC 1 cut(s) 13
FatI CATG 2 cut(s) 24, 245
FbaI TGATCA 1 cut(s) 283
Hin1II CATG 2 cut(s) 28, 249
HphI GGTGA 1 cut(s) 227
Hpy188I TCNGA 1 cut(s) 199
Hpy188III TCNNGA 2 cut(s) 272, 320
HpyAV CCTTC 1 cut(s) 326
HpyCH4III ACNGT 1 cut(s) 73
HpyCH4IV ACGT 1 cut(s) 223
HpyCH4V TGCA 1 cut(s) 4
HpyF10VI GCNNNNNNNGC 1 cut(s) 112
HpySE526I ACGT 1 cut(s) 223
Hsp92II CATG 2 cut(s) 28, 249
Ksp22I TGATCA 1 cut(s) 283
Kzo9I GATC 1 cut(s) 283
LweI GCATC 2 cut(s) 277, 288
MaeII ACGT 1 cut(s) 223
MaeIII GTNAC 1 cut(s) 219
MalI GATC 1 cut(s) 285
MboI GATC 1 cut(s) 283
MboII GAAGA 3 cut(s) 112, 182, 185
MluCI AATT 2 cut(s) 116, 205
MnlI CCTC 1 cut(s) 124
MseI TTAA 4 cut(s) 42, 162, 213, 294
MslI CAYNNNNRTG 2 cut(s) 23, 156
MwoI GCNNNNNNNGC 1 cut(s) 112
NdeII GATC 1 cut(s) 283
NlaIII CATG 2 cut(s) 28, 249
NmuCI GTSAC 1 cut(s) 219
NspI RCATGY 1 cut(s) 28
PciI ACATGT 1 cut(s) 24
PscI ACATGT 1 cut(s) 24
PshBI ATTAAT 1 cut(s) 213
PsiI TTATAA 1 cut(s) 93
RsaI GTAC 1 cut(s) 14
RsaNI GTAC 1 cut(s) 13
RseI CAYNNNNRTG 2 cut(s) 23, 156
SaqAI TTAA 4 cut(s) 42, 162, 213, 294
Sau3AI GATC 1 cut(s) 283
SetI ASST 3 cut(s) 37, 221, 226
SfaNI GCATC 2 cut(s) 277, 288
SgeI CNNG 6 cut(s) 37, 48, 234, 258, 284, 319
SmiMI CAYNNNNRTG 2 cut(s) 23, 156
Sse9I AATT 2 cut(s) 116, 205
StyI CCWWGG 1 cut(s) 35
TaaI ACNGT 1 cut(s) 73
TaiI ACGT 1 cut(s) 226
TaqI TCGA 1 cut(s) 251
TasI AATT 2 cut(s) 116, 205
Tru1I TTAA 4 cut(s) 42, 162, 213, 294
Tru9I TTAA 4 cut(s) 42, 162, 213, 294
TscAI CASTG 1 cut(s) 78
TseFI GTSAC 1 cut(s) 219
Tsp45I GTSAC 1 cut(s) 219
TspRI CASTG 1 cut(s) 78
VspI ATTAAT 1 cut(s) 213
XapI RAATTY 1 cut(s) 205
XceI RCATGY 1 cut(s) 28
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.