Rroxscaffold_6G00395720

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000224
Physical Location & Seq
Forward (+)
16863056 .. 16866680
3625 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00395720.1

Sequence Viewer

Length: 441 bp
ATGCCTACAGGCCCATATGCTGAAATAATGGCCAATGAAATTGGTTTCACAGTTCGAAACCATGCCCCACTAAATGTGGAAAAATGGAAGAAGATTCCGAATATTGAAGTGGATAAGTTGGTTAAAAGAATAACGAAACATTTTGAGAAATTTTCAACAATCGAGGAAGCAATTGAAAATAAACACAATGATGTCAAGACTCGGGAAGAATGGGAGTTTCTCTATGCTCATTTTTCTAGGGAAAATTTCCAGATTCGTTCAGAGAAGAATGCTATAAATAGGTCAAAGTTGACACATCACCACAAAGCTGGGTCAAAGTCATTTATGTCTCACCAAGAGCAAATTTTCCGAGGGCTCCTGTTCACTCAATACCCGGTTGACCTTGCAGACCAGTTCAATGACTTGCTCTCCCTAGCAAGCTTGCTGCCTCCACCGTCCTAA
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

146

Amino Acids

17.07

Weight (kDa)

8.02

Isoelectric Point (pI)

54.85

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Transposase_24 PF03004 70 - 114 1.9e-06 Plant transposase (Ptta/En/Spm family)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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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)
AcoI YGGCCR 1 cut(s) 30
AcsI RAATTY 3 cut(s) 149, 244, 342
AgsI TTSAA 4 cut(s) 107, 156, 176, 397
AluBI AGCT 2 cut(s) 308, 420
AluI AGCT 2 cut(s) 308, 420
Alw26I GTCTC 1 cut(s) 333
Ama87I CYCGRG 1 cut(s) 201
AoxI GGCC 2 cut(s) 10, 30
ApeKI GCWGC 1 cut(s) 424
ApoI RAATTY 3 cut(s) 149, 244, 342
AspS9I GGNCC 1 cut(s) 11
AsuC2I CCSGG 1 cut(s) 374
AsuHPI GGTGA 2 cut(s) 290, 323
AsuII TTCGAA 1 cut(s) 55
AvaI CYCGRG 1 cut(s) 201
BalI TGGCCA 1 cut(s) 32
BanII GRGCYC 1 cut(s) 357
BbvI GCAGC 1 cut(s) 411
BcnI CCSGG 1 cut(s) 374
BcoDI GTCTC 1 cut(s) 333
BfaI CTAG 2 cut(s) 237, 413
BfmI CTRYAG 1 cut(s) 6
BisI GCNGC 1 cut(s) 425
BlsI GCNGC 1 cut(s) 426
Bme1390I CCNGG 1 cut(s) 374
BmeT110I CYCGRG 1 cut(s) 201
BmgT120I GGNCC 1 cut(s) 11
BmiI GGNNCC 1 cut(s) 356
BmrFI CCNGG 1 cut(s) 374
Bpu14I TTCGAA 1 cut(s) 55
BpuMI CCSGG 1 cut(s) 374
BsaJI CCNNGG 1 cut(s) 349
BsaXI ACNNNNNCTCC 2 cut(s) 392, 422
Bse1I ACTGG 1 cut(s) 391
BseDI CCNNGG 1 cut(s) 349
BseNI ACTGG 1 cut(s) 391
BseXI GCAGC 1 cut(s) 411
BseYI CCCAGC 1 cut(s) 308
BshFI GGCC 2 cut(s) 12, 32
BsiHKCI CYCGRG 1 cut(s) 201
BsiSI CCGG 1 cut(s) 374
BsmAI GTCTC 1 cut(s) 333
BsmI GAATGC 1 cut(s) 274
BsnI GGCC 2 cut(s) 12, 32
BsoBI CYCGRG 1 cut(s) 201
Bsp119I TTCGAA 1 cut(s) 55
Bsp1286I GDGCHC 1 cut(s) 357
BspANI GGCC 2 cut(s) 12, 32
BspLI GGNNCC 1 cut(s) 356
BspT104I TTCGAA 1 cut(s) 55
BsrI ACTGG 1 cut(s) 391
BssECI CCNNGG 1 cut(s) 349
Bst4CI ACNGT 2 cut(s) 52, 435
BstBI TTCGAA 1 cut(s) 55
BstC8I GCNNGC 2 cut(s) 418, 422
BstMAI GTCTC 1 cut(s) 333
BstSCI CCNGG 1 cut(s) 372
BstSFI CTRYAG 1 cut(s) 6
BstV1I GCAGC 1 cut(s) 411
BstXI CCANNNNNNTGG 1 cut(s) 308
BsuRI GGCC 2 cut(s) 12, 32
Cac8I GCNNGC 2 cut(s) 418, 422
Cfr13I GGNCC 1 cut(s) 11
CviAII CATG 1 cut(s) 62
CviJI RGCY 5 cut(s) 12, 32, 308, 355, 420
CviKI_1 RGCY 5 cut(s) 12, 32, 308, 355, 420
EaeI YGGCCR 1 cut(s) 30
Eco24I GRGCYC 1 cut(s) 357
Eco88I CYCGRG 1 cut(s) 201
EcoT38I GRGCYC 1 cut(s) 357
FaeI CATG 1 cut(s) 65
FaiI YATR 6 cut(s) 16, 18, 63, 225, 275, 326
FatI CATG 1 cut(s) 61
FauNDI CATATG 1 cut(s) 16
Fnu4HI GCNGC 1 cut(s) 425
FriOI GRGCYC 1 cut(s) 357
Fsp4HI GCNGC 1 cut(s) 425
FspBI CTAG 2 cut(s) 237, 413
GluI GCNGC 1 cut(s) 425
GsaI CCCAGC 1 cut(s) 312
HaeIII GGCC 2 cut(s) 12, 32
HapII CCGG 1 cut(s) 374
Hin1II CATG 1 cut(s) 65
HincII GTYRAC 2 cut(s) 291, 379
HindII GTYRAC 2 cut(s) 291, 379
HindIII AAGCTT 1 cut(s) 418
HinfI GANTC 3 cut(s) 94, 199, 253
HpaII CCGG 1 cut(s) 374
HphI GGTGA 2 cut(s) 290, 323
Hpy166II GTNNAC 3 cut(s) 291, 363, 379
Hpy188I TCNGA 3 cut(s) 99, 262, 350
Hpy188III TCNNGA 3 cut(s) 196, 203, 250
Hpy8I GTNNAC 3 cut(s) 291, 363, 379
HpyCH4III ACNGT 2 cut(s) 52, 435
HpyCH4V TGCA 1 cut(s) 386
Hsp92II CATG 1 cut(s) 65
LmnI GCTCC 1 cut(s) 360
LpnPI CCDG 5 cut(s) 263, 294, 371, 387, 404
Lsp1109I GCAGC 1 cut(s) 411
MaeI CTAG 2 cut(s) 237, 413
MboII GAAGA 4 cut(s) 100, 103, 218, 277
MfeI CAATTG 1 cut(s) 171
MhlI GDGCHC 1 cut(s) 357
MlsI TGGCCA 1 cut(s) 32
MluCI AATT 5 cut(s) 39, 149, 171, 244, 342
MluNI TGGCCA 1 cut(s) 32
MlyI GAGTC 1 cut(s) 193
MnlI CCTC 3 cut(s) 157, 344, 438
Mox20I TGGCCA 1 cut(s) 32
MscI TGGCCA 1 cut(s) 32
MseI TTAA 1 cut(s) 123
MslI CAYNNNNRTG 1 cut(s) 189
Msp20I TGGCCA 1 cut(s) 32
MspI CCGG 1 cut(s) 374
MspR9I CCNGG 1 cut(s) 374
MunI CAATTG 1 cut(s) 171
Mva1269I GAATGC 1 cut(s) 274
NciI CCSGG 1 cut(s) 374
NdeI CATATG 1 cut(s) 16
NlaIII CATG 1 cut(s) 65
NlaIV GGNNCC 1 cut(s) 356
NspV TTCGAA 1 cut(s) 55
PctI GAATGC 1 cut(s) 274
PfeI GAWTC 2 cut(s) 94, 253
PkrI GCNGC 1 cut(s) 426
PleI GAGTC 1 cut(s) 193
PpsI GAGTC 1 cut(s) 193
PspFI CCCAGC 1 cut(s) 308
PspN4I GGNNCC 1 cut(s) 356
PspPI GGNCC 1 cut(s) 11
RseI CAYNNNNRTG 1 cut(s) 189
SaqAI TTAA 1 cut(s) 123
SatI GCNGC 1 cut(s) 425
Sau96I GGNCC 1 cut(s) 11
SchI GAGTC 1 cut(s) 193
ScrFI CCNGG 1 cut(s) 374
SduI GDGCHC 1 cut(s) 357
SetI ASST 4 cut(s) 284, 310, 384, 422
SfcI CTRYAG 1 cut(s) 6
SfuI TTCGAA 1 cut(s) 55
SmiMI CAYNNNNRTG 1 cut(s) 189
Sse9I AATT 5 cut(s) 39, 149, 171, 244, 342
SspI AATATT 1 cut(s) 103
SspMI CTAG 2 cut(s) 237, 413
StyD4I CCNGG 1 cut(s) 372
TaaI ACNGT 2 cut(s) 52, 435
TaqI TCGA 2 cut(s) 55, 162
TasI AATT 5 cut(s) 39, 149, 171, 244, 342
TfiI GAWTC 2 cut(s) 94, 253
Tru1I TTAA 1 cut(s) 123
Tru9I TTAA 1 cut(s) 123
TseI GCWGC 1 cut(s) 424
TspDTI ATGAA 1 cut(s) 51
XapI RAATTY 3 cut(s) 149, 244, 342
XspI CTAG 2 cut(s) 237, 413
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.