Rroxscaffold_7G00166860

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0001541
Physical Location & Seq
Forward (+)
8222373 .. 8222843
471 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00166860.1

Sequence Viewer

Length: 471 bp
ATGAAGTTTGACTACCATTTGATGTCGTTAAACATTAAAAACCAATGGTACCAGCATGATCCTTATGTGCTAGCAAAACAAGCCCATAAGGTGTTTTATCTTAATGACCTGAAATTGGGACATCCTTGGAAAGTTGTCCAGAAGATTCAATATAGGCACTTGTGGGATGTTCCAGAAAGAGAAGAAGACGAAGATCTTGTAGACCATGATAATGACCACGGTGACGAGGACGATGATGCTAATATATGGGAGGTTCACGTAGAAGATGATGAAACTAGTACATCTTTCCGTAGACATGATGTGGAACCTGAAACTATTATCCTCAACAACACAAATAAAGAAAAGAATGCAGCAAATGATCGTGATTTTATTGACGATGATTCTACGGATGATGATCTTATGTTGGAGCATAATAGAGCTCTTGGTGAAGAAGAATTACTAGGTGATCATAGTGACACAAATAGTGACTAG
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

156

Amino Acids

18.54

Weight (kDa)

4.42

Isoelectric Point (pI)

40.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4216 PF13952 4 - 46 3.8e-11 Domain of unknown function (DUF4216)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 48
AccB1I GGYRCC 1 cut(s) 48
AccI GTMKAC 2 cut(s) 201, 292
AclWI GGATC 1 cut(s) 53
AfaI GTAC 2 cut(s) 50, 280
AfiI CCNNNNNNNGG 1 cut(s) 115
AgsI TTSAA 1 cut(s) 149
AhlI ACTAGT 1 cut(s) 275
AluBI AGCT 1 cut(s) 419
AluI AGCT 1 cut(s) 419
Alw21I GWGCWC 1 cut(s) 421
AlwI GGATC 1 cut(s) 53
ApeKI GCWGC 1 cut(s) 350
Asp718I GGTACC 1 cut(s) 48
AsuHPI GGTGA 3 cut(s) 233, 437, 455
AsuNHI GCTAGC 1 cut(s) 70
BanI GGYRCC 1 cut(s) 48
BanII GRGCYC 1 cut(s) 421
BarI GAAGNNNNNNTAC 3 cut(s) 28, 420, 452
BbsI GAAGAC 1 cut(s) 192
Bbv12I GWGCWC 1 cut(s) 421
BbvI GCAGC 1 cut(s) 362
BclI TGATCA 1 cut(s) 445
BcuI ACTAGT 1 cut(s) 275
BfaI CTAG 4 cut(s) 71, 276, 440, 469
BglII AGATCT 1 cut(s) 193
BisI GCNGC 1 cut(s) 351
BlsI GCNGC 1 cut(s) 352
BmiI GGNNCC 2 cut(s) 50, 306
BmsI GCATC 1 cut(s) 226
BmtI GCTAGC 1 cut(s) 74
BpiI GAAGAC 1 cut(s) 192
BsaAI YACGTR 1 cut(s) 259
BsaBI GATNNNNATC 1 cut(s) 393
BsaJI CCNNGG 2 cut(s) 125, 217
Bsc4I CCNNNNNNNGG 1 cut(s) 115
Bse8I GATNNNNATC 1 cut(s) 393
BseDI CCNNGG 2 cut(s) 125, 217
BseGI GGATG 3 cut(s) 121, 172, 394
BseJI GATNNNNATC 1 cut(s) 393
BseLI CCNNNNNNNGG 1 cut(s) 115
BseXI GCAGC 1 cut(s) 362
BshNI GGYRCC 1 cut(s) 48
BsiHKAI GWGCWC 1 cut(s) 421
BslFI GGGAC 1 cut(s) 132
BslI CCNNNNNNNGG 1 cut(s) 115
BsmFI GGGAC 1 cut(s) 132
BsmI GAATGC 1 cut(s) 352
Bsp1286I GDGCHC 1 cut(s) 421
Bsp143I GATC 5 cut(s) 58, 193, 358, 394, 445
BspLI GGNNCC 2 cut(s) 50, 306
BspOI GCTAGC 1 cut(s) 74
BspPI GGATC 1 cut(s) 53
BspT107I GGYRCC 1 cut(s) 48
BssECI CCNNGG 2 cut(s) 125, 217
BssMI GATC 5 cut(s) 58, 193, 358, 394, 445
BssT1I CCWWGG 1 cut(s) 125
Bst4CI ACNGT 1 cut(s) 221
BstBAI YACGTR 1 cut(s) 259
BstC8I GCNNGC 1 cut(s) 72
BstDSI CCRYGG 1 cut(s) 217
BstF5I GGATG 3 cut(s) 121, 172, 394
BstKTI GATC 5 cut(s) 61, 196, 361, 397, 448
BstMBI GATC 5 cut(s) 58, 193, 358, 394, 445
BstMWI GCNNNNNNNGC 1 cut(s) 80
BstV1I GCAGC 1 cut(s) 362
BstV2I GAAGAC 1 cut(s) 192
BstX2I RGATCY 1 cut(s) 193
BstYI RGATCY 1 cut(s) 193
BtgI CCRYGG 1 cut(s) 217
BtsCI GGATG 3 cut(s) 121, 172, 394
Cac8I GCNNGC 1 cut(s) 72
Csp6I GTAC 2 cut(s) 49, 279
CviAII CATG 3 cut(s) 56, 206, 296
CviJI RGCY 2 cut(s) 83, 419
CviKI_1 RGCY 2 cut(s) 83, 419
CviQI GTAC 2 cut(s) 49, 279
DpnI GATC 5 cut(s) 60, 195, 360, 396, 447
DpnII GATC 5 cut(s) 58, 193, 358, 394, 445
Ecl136II GAGCTC 1 cut(s) 419
Eco130I CCWWGG 1 cut(s) 125
Eco24I GRGCYC 1 cut(s) 421
Eco53kI GAGCTC 1 cut(s) 419
EcoICRI GAGCTC 1 cut(s) 419
EcoT14I CCWWGG 1 cut(s) 125
EcoT38I GRGCYC 1 cut(s) 421
ErhI CCWWGG 1 cut(s) 125
FaeI CATG 3 cut(s) 59, 209, 299
FaqI GGGAC 1 cut(s) 132
FatI CATG 3 cut(s) 55, 205, 295
FbaI TGATCA 1 cut(s) 445
FblI GTMKAC 2 cut(s) 201, 292
Fnu4HI GCNGC 1 cut(s) 351
FokI GGATG 3 cut(s) 108, 179, 401
FriOI GRGCYC 1 cut(s) 421
Fsp4HI GCNGC 1 cut(s) 351
FspBI CTAG 4 cut(s) 71, 276, 440, 469
GluI GCNGC 1 cut(s) 351
Hin1II CATG 3 cut(s) 59, 209, 299
HinfI GANTC 2 cut(s) 145, 380
HphI GGTGA 3 cut(s) 233, 437, 455
Hpy166II GTNNAC 3 cut(s) 202, 256, 293
Hpy188III TCNNGA 3 cut(s) 139, 173, 362
Hpy8I GTNNAC 3 cut(s) 202, 256, 293
HpyCH4III ACNGT 1 cut(s) 221
HpyCH4IV ACGT 1 cut(s) 258
HpyCH4V TGCA 1 cut(s) 350
HpyF10VI GCNNNNNNNGC 1 cut(s) 80
HpySE526I ACGT 1 cut(s) 258
Hsp92II CATG 3 cut(s) 59, 209, 299
KpnI GGTACC 1 cut(s) 52
Ksp22I TGATCA 1 cut(s) 445
Kzo9I GATC 5 cut(s) 58, 193, 358, 394, 445
LmnI GCTCC 1 cut(s) 406
LpnPI CCDG 5 cut(s) 65, 122, 152, 186, 321
Lsp1109I GCAGC 1 cut(s) 362
LweI GCATC 1 cut(s) 226
MaeI CTAG 4 cut(s) 71, 276, 440, 469
MaeII ACGT 1 cut(s) 258
MaeIII GTNAC 3 cut(s) 221, 452, 464
MalI GATC 5 cut(s) 60, 195, 360, 396, 447
MboI GATC 5 cut(s) 58, 193, 358, 394, 445
MboII GAAGA 7 cut(s) 154, 194, 197, 203, 275, 440, 443
MflI RGATCY 1 cut(s) 193
MhlI GDGCHC 1 cut(s) 421
MluCI AATT 2 cut(s) 113, 434
MmeI TCCRAC 1 cut(s) 384
MnlI CCTC 3 cut(s) 220, 244, 332
MseI TTAA 3 cut(s) 29, 36, 102
MslI CAYNNNNRTG 1 cut(s) 210
Mva1269I GAATGC 1 cut(s) 352
MwoI GCNNNNNNNGC 1 cut(s) 80
NdeII GATC 5 cut(s) 58, 193, 358, 394, 445
NheI GCTAGC 1 cut(s) 70
NlaIII CATG 3 cut(s) 59, 209, 299
NlaIV GGNNCC 2 cut(s) 50, 306
NmuCI GTSAC 3 cut(s) 221, 452, 464
PctI GAATGC 1 cut(s) 352
PfeI GAWTC 2 cut(s) 145, 380
PkrI GCNGC 1 cut(s) 352
Ppu21I YACGTR 1 cut(s) 259
Psp124BI GAGCTC 1 cut(s) 421
PspN4I GGNNCC 2 cut(s) 50, 306
PsuI RGATCY 1 cut(s) 193
RsaI GTAC 2 cut(s) 50, 280
RsaNI GTAC 2 cut(s) 49, 279
RseI CAYNNNNRTG 1 cut(s) 210
SacI GAGCTC 1 cut(s) 421
SaqAI TTAA 3 cut(s) 29, 36, 102
SatI GCNGC 1 cut(s) 351
Sau3AI GATC 5 cut(s) 58, 193, 358, 394, 445
SduI GDGCHC 1 cut(s) 421
SetI ASST 7 cut(s) 93, 111, 255, 261, 310, 421, 445
SfaNI GCATC 1 cut(s) 226
SmiMI CAYNNNNRTG 1 cut(s) 210
SpeI ACTAGT 1 cut(s) 275
Sse9I AATT 2 cut(s) 113, 434
SspMI CTAG 4 cut(s) 71, 276, 440, 469
SstI GAGCTC 1 cut(s) 421
StyI CCWWGG 1 cut(s) 125
TaaI ACNGT 1 cut(s) 221
TaiI ACGT 1 cut(s) 261
TasI AATT 2 cut(s) 113, 434
TatI WGTACW 1 cut(s) 278
TfiI GAWTC 2 cut(s) 145, 380
Tru1I TTAA 3 cut(s) 29, 36, 102
Tru9I TTAA 3 cut(s) 29, 36, 102
TseFI GTSAC 3 cut(s) 221, 452, 464
TseI GCWGC 1 cut(s) 350
Tsp45I GTSAC 3 cut(s) 221, 452, 464
TspDTI ATGAA 2 cut(s) 17, 285
TspGWI ACGGA 2 cut(s) 278, 401
XmiI GTMKAC 2 cut(s) 201, 292
XspI CTAG 4 cut(s) 71, 276, 440, 469
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.