Rroxscaffold_1G00025400

TdcA1-ORF2 protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0001541
Physical Location & Seq
Reverse (-)
31884475 .. 31884945
471 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00025400.1

Sequence Viewer

Length: 471 bp
ATGAAGTTTGACTACCATTTGACGTCGTTAAACGTTAAAAACCAATGGTACCAGCATGATCCTTATGTGCTAGCAAAACAAGCCCATAAGGTGTTTTATCTTGATGACCTAAAATTGGGACAACCTTGGAAAGTTGTCCAGAAGATTCAATATAGGCACTTGTGGGATGTTCCAGAAAGAGAAGAAGATGAAGATCTTGTAGACCATGATAATGATCCCGGTGACGAGGACGATGACACTAATATATGGGAGGTTCACGTAGAAGATGATGAAACCAGTACATCTTTGCGCAGACATGATGTGGAACTTGAAACTATTATCCTCAACAACACAAATAAAGAAAAGAATGCAGCAGATGACGGTGATTTTATCGACGATGATTCTACGGATGATGATCTTATGTTGGACCATAATAGAGCTCTTGGTGAAGAAGAATTACTAGGTGATCATAGTGACACAAATAGTGAATAG
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

18.36

Weight (kDa)

4.25

Isoelectric Point (pI)

36.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4216 PF13952 4 - 46 5.6e-12 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)
AatII GACGTC 1 cut(s) 26
Acc16I TGCGCA 1 cut(s) 290
Acc65I GGTACC 1 cut(s) 48
AccB1I GGYRCC 1 cut(s) 48
AccI GTMKAC 1 cut(s) 201
AclI AACGTT 1 cut(s) 33
AclWI GGATC 2 cut(s) 53, 209
AcyI GRCGYC 1 cut(s) 23
AfaI GTAC 2 cut(s) 50, 280
AfiI CCNNNNNNNGG 1 cut(s) 115
AgsI TTSAA 2 cut(s) 149, 311
AluBI AGCT 1 cut(s) 419
AluI AGCT 1 cut(s) 419
Alw21I GWGCWC 1 cut(s) 421
AlwI GGATC 2 cut(s) 53, 209
ApeKI GCWGC 1 cut(s) 350
Asp718I GGTACC 1 cut(s) 48
AspLEI GCGC 1 cut(s) 291
AspS9I GGNCC 1 cut(s) 406
AsuC2I CCSGG 1 cut(s) 219
AsuHPI GGTGA 4 cut(s) 233, 374, 437, 455
AsuNHI GCTAGC 1 cut(s) 70
AvaII GGWCC 1 cut(s) 406
BanI GGYRCC 1 cut(s) 48
BanII GRGCYC 1 cut(s) 421
BarI GAAGNNNNNNTAC 3 cut(s) 28, 420, 452
Bbv12I GWGCWC 1 cut(s) 421
BbvI GCAGC 1 cut(s) 362
BclI TGATCA 1 cut(s) 445
BcnI CCSGG 1 cut(s) 219
BfaI CTAG 2 cut(s) 71, 440
BglII AGATCT 1 cut(s) 193
BisI GCNGC 1 cut(s) 351
BlsI GCNGC 1 cut(s) 352
Bme1390I CCNGG 1 cut(s) 219
Bme18I GGWCC 1 cut(s) 406
BmgT120I GGNCC 1 cut(s) 406
BmiI GGNNCC 1 cut(s) 50
BmrFI CCNGG 1 cut(s) 219
BmtI GCTAGC 1 cut(s) 74
BpuMI CCSGG 1 cut(s) 219
BsaAI YACGTR 1 cut(s) 259
BsaBI GATNNNNATC 3 cut(s) 192, 213, 393
BsaHI GRCGYC 1 cut(s) 23
BsaJI CCNNGG 1 cut(s) 125
Bsc4I CCNNNNNNNGG 1 cut(s) 115
Bse1I ACTGG 1 cut(s) 276
Bse8I GATNNNNATC 3 cut(s) 192, 213, 393
BseDI CCNNGG 1 cut(s) 125
BseGI GGATG 2 cut(s) 172, 394
BseJI GATNNNNATC 3 cut(s) 192, 213, 393
BseLI CCNNNNNNNGG 1 cut(s) 115
BseNI ACTGG 1 cut(s) 276
BseXI GCAGC 1 cut(s) 362
BshNI GGYRCC 1 cut(s) 48
BsiHKAI GWGCWC 1 cut(s) 421
BsiSI CCGG 1 cut(s) 219
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, 214, 394, 445
BspLI GGNNCC 1 cut(s) 50
BspOI GCTAGC 1 cut(s) 74
BspPI GGATC 2 cut(s) 53, 209
BspT107I GGYRCC 1 cut(s) 48
BsrI ACTGG 1 cut(s) 276
BssECI CCNNGG 1 cut(s) 125
BssMI GATC 5 cut(s) 58, 193, 214, 394, 445
BssNI GRCGYC 1 cut(s) 23
BssT1I CCWWGG 1 cut(s) 125
Bst4CI ACNGT 1 cut(s) 362
BstACI GRCGYC 1 cut(s) 23
BstBAI YACGTR 1 cut(s) 259
BstC8I GCNNGC 1 cut(s) 72
BstF5I GGATG 2 cut(s) 172, 394
BstHHI GCGC 1 cut(s) 291
BstKTI GATC 5 cut(s) 61, 196, 217, 397, 448
BstMBI GATC 5 cut(s) 58, 193, 214, 394, 445
BstMWI GCNNNNNNNGC 1 cut(s) 80
BstSCI CCNGG 1 cut(s) 217
BstV1I GCAGC 1 cut(s) 362
BstX2I RGATCY 1 cut(s) 193
BstYI RGATCY 1 cut(s) 193
BtsCI GGATG 2 cut(s) 172, 394
Cac8I GCNNGC 1 cut(s) 72
CfoI GCGC 1 cut(s) 291
Cfr13I GGNCC 1 cut(s) 406
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, 216, 396, 447
DpnII GATC 5 cut(s) 58, 193, 214, 394, 445
Ecl136II GAGCTC 1 cut(s) 419
Eco130I CCWWGG 1 cut(s) 125
Eco24I GRGCYC 1 cut(s) 421
Eco47I GGWCC 1 cut(s) 406
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 1 cut(s) 201
Fnu4HI GCNGC 1 cut(s) 351
FokI GGATG 2 cut(s) 179, 401
FriOI GRGCYC 1 cut(s) 421
Fsp4HI GCNGC 1 cut(s) 351
FspBI CTAG 2 cut(s) 71, 440
FspI TGCGCA 1 cut(s) 290
GlaI GCGC 1 cut(s) 290
GluI GCNGC 1 cut(s) 351
HapII CCGG 1 cut(s) 219
HhaI GCGC 1 cut(s) 291
Hin1I GRCGYC 1 cut(s) 23
Hin1II CATG 3 cut(s) 59, 209, 299
Hin6I GCGC 1 cut(s) 289
HinP1I GCGC 1 cut(s) 289
HinfI GANTC 2 cut(s) 145, 380
HpaII CCGG 1 cut(s) 219
HphI GGTGA 4 cut(s) 233, 374, 437, 455
Hpy166II GTNNAC 2 cut(s) 202, 256
Hpy188III TCNNGA 3 cut(s) 101, 139, 173
Hpy8I GTNNAC 2 cut(s) 202, 256
Hpy99I CGWCG 2 cut(s) 28, 377
HpyCH4III ACNGT 1 cut(s) 362
HpyCH4IV ACGT 3 cut(s) 23, 33, 258
HpyCH4V TGCA 1 cut(s) 350
HpyF10VI GCNNNNNNNGC 1 cut(s) 80
HpySE526I ACGT 3 cut(s) 23, 33, 258
Hsp92I GRCGYC 1 cut(s) 23
Hsp92II CATG 3 cut(s) 59, 209, 299
HspAI GCGC 1 cut(s) 289
KpnI GGTACC 1 cut(s) 52
Ksp22I TGATCA 1 cut(s) 445
Kzo9I GATC 5 cut(s) 58, 193, 214, 394, 445
LpnPI CCDG 5 cut(s) 65, 152, 186, 232, 289
Lsp1109I GCAGC 1 cut(s) 362
MaeI CTAG 2 cut(s) 71, 440
MaeII ACGT 3 cut(s) 23, 33, 258
MaeIII GTNAC 2 cut(s) 221, 452
MalI GATC 5 cut(s) 60, 195, 216, 396, 447
MboI GATC 5 cut(s) 58, 193, 214, 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 2 cut(s) 29, 36
MslI CAYNNNNRTG 1 cut(s) 210
MspI CCGG 1 cut(s) 219
MspR9I CCNGG 1 cut(s) 219
Mva1269I GAATGC 1 cut(s) 352
MwoI GCNNNNNNNGC 1 cut(s) 80
NciI CCSGG 1 cut(s) 219
NdeII GATC 5 cut(s) 58, 193, 214, 394, 445
NheI GCTAGC 1 cut(s) 70
NlaIII CATG 3 cut(s) 59, 209, 299
NlaIV GGNNCC 1 cut(s) 50
NmuCI GTSAC 2 cut(s) 221, 452
NsbI TGCGCA 1 cut(s) 290
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
Psp1406I AACGTT 1 cut(s) 33
PspN4I GGNNCC 1 cut(s) 50
PspPI GGNCC 1 cut(s) 406
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 2 cut(s) 29, 36
SatI GCNGC 1 cut(s) 351
Sau3AI GATC 5 cut(s) 58, 193, 214, 394, 445
Sau96I GGNCC 1 cut(s) 406
ScrFI CCNGG 1 cut(s) 219
SduI GDGCHC 1 cut(s) 421
SetI ASST 9 cut(s) 26, 36, 93, 111, 127, 255, 261, 421, 445
SinI GGWCC 1 cut(s) 406
SmiMI CAYNNNNRTG 1 cut(s) 210
Sse9I AATT 2 cut(s) 113, 434
SspMI CTAG 2 cut(s) 71, 440
SstI GAGCTC 1 cut(s) 421
StyD4I CCNGG 1 cut(s) 217
StyI CCWWGG 1 cut(s) 125
TaaI ACNGT 1 cut(s) 362
TaiI ACGT 3 cut(s) 26, 36, 261
TaqI TCGA 1 cut(s) 372
TasI AATT 2 cut(s) 113, 434
TatI WGTACW 1 cut(s) 278
TfiI GAWTC 2 cut(s) 145, 380
Tru1I TTAA 2 cut(s) 29, 36
Tru9I TTAA 2 cut(s) 29, 36
TseFI GTSAC 2 cut(s) 221, 452
TseI GCWGC 1 cut(s) 350
Tsp45I GTSAC 2 cut(s) 221, 452
TspDTI ATGAA 3 cut(s) 17, 204, 285
TspGWI ACGGA 1 cut(s) 401
VpaK11BI GGWCC 1 cut(s) 406
XmiI GTMKAC 1 cut(s) 201
XspI CTAG 2 cut(s) 71, 440
ZraI GACGTC 1 cut(s) 24
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.