RchiOBHm_Chr5g0069441

nudC domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0013389
Physical Location & Seq
Forward (+)
75312063 .. 75313980
1918 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ34483

Sequence Viewer

Length: 477 bp
ATGGCCGATAAATTGGCTCCGGAGAAACGCCATAGCTTCATTCACAACGGTCAAAAGGTATTCGAATGGGACCAAACCCTAGAGGAAGTGAACATGTACATCACTCTGCCCCCAAATGTTCCTCCCAAGCAATTTTACTGCAAACTTCAGGCGAAGCACGTCGAAGTCGGCATCAAAGGAAATCCTCCGTACCTCAATCATGATCTTACTAGCCCTGTGAAGACAGACTGTTCTTTCTGGACACTAGAGGATGATATAATGCACATAACACTGCAAAAGAGGGACAAAGGTCAGACATGGGCTTCCCCTATAGTGGGTGAGGGTCAGCTGGATCCTTACGCCACCGATCTTGAACAGAAGCGTCTTATGCTTCAGAGGTTTCAAGAAGAGAACCCTGGTTTTGACTTTTCACAAGCTCAGTTCAATGGAGGCTGCCCTGATCCACGTACCTTTATGGGTGGTATCCGCTCTGATTGA
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
CS

Protein Analysis

158

Amino Acids

18.15

Weight (kDa)

5.51

Isoelectric Point (pI)

53.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CS PF04969 21 - 93 1.4e-19 CS domain
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: OG0013389)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G58740
fragaria_vesca FvH4_3g38540
malus_domestica MD03G1070800.v1.1 MD11G1074800.v1.1
prunus_persica Prupe.6G057600_v2.0.a1 Prupe.6G057600_v2.0.a1
pyrus_communis pycom03g05710
rosa_chinensis RchiOBHm_Chr5g0069441
rosa_laevigata RLG00000036053
rosa_multiflora Rmu_sc0002658.1_g000032 Rmu_sc0019422.1_g000002
rosa_roxburghii Rroxscaffold_1G00011510
rosa_rugosa Rorug05G0397600
rosa_samantha Rh5AG454900 Rh5BG473900 Rh5CG496300 Rh5DG485700
rosa_wichuraiana Rw5G042430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 468
AccIII TCCGGA 1 cut(s) 19
AciI CCGC 1 cut(s) 466
AclWI GGATC 3 cut(s) 326, 339, 434
AcoI YGGCCR 1 cut(s) 3
AcuI CTGAAG 2 cut(s) 131, 356
AfaI GTAC 3 cut(s) 98, 191, 448
AfiI CCNNNNNNNGG 2 cut(s) 313, 314
AflIII ACRYGT 1 cut(s) 93
AgsI TTSAA 3 cut(s) 353, 383, 424
AjiI CACGTC 1 cut(s) 160
AjnI CCWGG 1 cut(s) 394
AluBI AGCT 3 cut(s) 36, 328, 416
AluI AGCT 3 cut(s) 36, 328, 416
AlwI GGATC 3 cut(s) 326, 339, 434
Aor13HI TCCGGA 1 cut(s) 19
AoxI GGCC 1 cut(s) 3
ApeKI GCWGC 1 cut(s) 432
AspS9I GGNCC 1 cut(s) 70
AsuHPI GGTGA 1 cut(s) 329
AsuII TTCGAA 1 cut(s) 63
AvaII GGWCC 1 cut(s) 70
BamHI GGATCC 1 cut(s) 331
BbsI GAAGAC 1 cut(s) 227
BbvI GCAGC 1 cut(s) 419
BciT130I CCWGG 1 cut(s) 396
BciVI GTATCC 1 cut(s) 473
BfaI CTAG 3 cut(s) 80, 210, 245
BfmI CTRYAG 1 cut(s) 309
BfuI GTATCC 1 cut(s) 473
BisI GCNGC 1 cut(s) 433
BlsI GCNGC 1 cut(s) 434
Bme1390I CCNGG 1 cut(s) 396
Bme18I GGWCC 1 cut(s) 70
BmgBI CACGTC 1 cut(s) 160
BmgT120I GGNCC 1 cut(s) 70
BmiI GGNNCC 3 cut(s) 18, 71, 333
BmrFI CCNGG 1 cut(s) 396
BmsI GCATC 1 cut(s) 180
BoxI GACNNNNGTC 1 cut(s) 288
BpiI GAAGAC 1 cut(s) 227
Bpu14I TTCGAA 1 cut(s) 63
BsaAI YACGTR 1 cut(s) 446
BsaJI CCNNGG 1 cut(s) 394
BsaWI WCCGGW 1 cut(s) 19
Bsc4I CCNNNNNNNGG 2 cut(s) 313, 314
BseAI TCCGGA 1 cut(s) 19
BseBI CCWGG 1 cut(s) 396
BseDI CCNNGG 1 cut(s) 394
BseGI GGATG 1 cut(s) 256
BseLI CCNNNNNNNGG 2 cut(s) 313, 314
BseMII CTCAG 1 cut(s) 431
BseXI GCAGC 1 cut(s) 419
BshFI GGCC 1 cut(s) 5
BsiSI CCGG 1 cut(s) 20
BslFI GGGAC 2 cut(s) 83, 296
BslI CCNNNNNNNGG 2 cut(s) 313, 314
BsmFI GGGAC 2 cut(s) 83, 296
BsnI GGCC 1 cut(s) 5
Bsp119I TTCGAA 1 cut(s) 63
Bsp13I TCCGGA 1 cut(s) 19
Bsp1407I TGTACA 1 cut(s) 96
Bsp143I GATC 4 cut(s) 202, 331, 346, 439
BspACI CCGC 1 cut(s) 466
BspANI GGCC 1 cut(s) 5
BspCNI CTCAG 1 cut(s) 430
BspEI TCCGGA 1 cut(s) 19
BspHI TCATGA 1 cut(s) 199
BspLI GGNNCC 3 cut(s) 18, 71, 333
BspPI GGATC 3 cut(s) 326, 339, 434
BspT104I TTCGAA 1 cut(s) 63
BsrBI CCGCTC 1 cut(s) 468
BsrGI TGTACA 1 cut(s) 96
BssECI CCNNGG 1 cut(s) 394
BssMI GATC 4 cut(s) 202, 331, 346, 439
Bst2UI CCWGG 1 cut(s) 396
Bst4CI ACNGT 2 cut(s) 50, 230
Bst6I CTCTTC 1 cut(s) 381
BstAUI TGTACA 1 cut(s) 96
BstBAI YACGTR 1 cut(s) 446
BstBI TTCGAA 1 cut(s) 63
BstDEI CTNAG 1 cut(s) 417
BstF5I GGATG 1 cut(s) 256
BstKTI GATC 4 cut(s) 205, 334, 349, 442
BstMBI GATC 4 cut(s) 202, 331, 346, 439
BstMWI GCNNNNNNNGC 1 cut(s) 367
BstNI CCWGG 1 cut(s) 396
BstNSI RCATGY 1 cut(s) 97
BstPAI GACNNNNGTC 1 cut(s) 288
BstSCI CCNGG 1 cut(s) 394
BstSFI CTRYAG 1 cut(s) 309
BstV1I GCAGC 1 cut(s) 419
BstV2I GAAGAC 1 cut(s) 227
BstX2I RGATCY 1 cut(s) 331
BstYI RGATCY 1 cut(s) 331
BsuI GTATCC 1 cut(s) 473
BsuRI GGCC 1 cut(s) 5
BtrI CACGTC 1 cut(s) 160
BtsCI GGATG 1 cut(s) 256
BtsI GCAGTG 1 cut(s) 269
BtsIMutI CAGTG 1 cut(s) 269
CciI TCATGA 1 cut(s) 199
Cfr13I GGNCC 1 cut(s) 70
CseI GACGC 1 cut(s) 350
Csp6I GTAC 3 cut(s) 97, 190, 447
CspCI CAANNNNNGTGG 2 cut(s) 331, 366
CviAII CATG 3 cut(s) 94, 200, 297
CviJI RGCY 8 cut(s) 5, 17, 36, 213, 302, 328, 416, 432
CviKI_1 RGCY 8 cut(s) 5, 17, 36, 213, 302, 328, 416, 432
CviQI GTAC 3 cut(s) 97, 190, 447
DdeI CTNAG 1 cut(s) 417
DpnI GATC 4 cut(s) 204, 333, 348, 441
DpnII GATC 4 cut(s) 202, 331, 346, 439
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 1 cut(s) 381
EarI CTCTTC 1 cut(s) 381
Eco47I GGWCC 1 cut(s) 70
Eco57I CTGAAG 2 cut(s) 131, 356
EcoRII CCWGG 1 cut(s) 394
FaeI CATG 3 cut(s) 97, 203, 300
FaiI YATR 9 cut(s) 33, 95, 201, 257, 266, 298, 311, 368, 455
FaqI GGGAC 2 cut(s) 83, 296
FatI CATG 3 cut(s) 93, 199, 296
Fnu4HI GCNGC 1 cut(s) 433
FokI GGATG 1 cut(s) 263
Fsp4HI GCNGC 1 cut(s) 433
FspBI CTAG 3 cut(s) 80, 210, 245
GluI GCNGC 1 cut(s) 433
HaeIII GGCC 1 cut(s) 5
HapII CCGG 1 cut(s) 20
HgaI GACGC 1 cut(s) 350
Hin1II CATG 3 cut(s) 97, 203, 300
HpaII CCGG 1 cut(s) 20
HphI GGTGA 1 cut(s) 329
Hpy166II GTNNAC 1 cut(s) 91
Hpy188I TCNGA 3 cut(s) 294, 375, 472
Hpy188III TCNNGA 5 cut(s) 20, 200, 238, 350, 383
Hpy8I GTNNAC 1 cut(s) 91
Hpy99I CGWCG 1 cut(s) 164
HpyCH4III ACNGT 2 cut(s) 50, 230
HpyCH4IV ACGT 2 cut(s) 159, 445
HpyCH4V TGCA 3 cut(s) 141, 262, 274
HpyF10VI GCNNNNNNNGC 1 cut(s) 367
HpyF3I CTNAG 1 cut(s) 417
HpySE526I ACGT 2 cut(s) 159, 445
Hsp92II CATG 3 cut(s) 97, 203, 300
Kpn2I TCCGGA 1 cut(s) 19
Kzo9I GATC 4 cut(s) 202, 331, 346, 439
LmnI GCTCC 1 cut(s) 22
LpnPI CCDG 8 cut(s) 33, 134, 223, 228, 314, 381, 408, 450
Lsp1109I GCAGC 1 cut(s) 419
LweI GCATC 1 cut(s) 180
MaeI CTAG 3 cut(s) 80, 210, 245
MaeII ACGT 2 cut(s) 159, 445
MalI GATC 4 cut(s) 204, 333, 348, 441
MbiI CCGCTC 1 cut(s) 468
MboI GATC 4 cut(s) 202, 331, 346, 439
MboII GAAGA 2 cut(s) 232, 398
MflI RGATCY 1 cut(s) 331
MluCI AATT 2 cut(s) 11, 131
MnlI CCTC 9 cut(s) 76, 132, 195, 203, 241, 273, 313, 369, 422
MroI TCCGGA 1 cut(s) 19
MspA1I CMGCKG 1 cut(s) 328
MspI CCGG 1 cut(s) 20
MspR9I CCNGG 1 cut(s) 396
MvaI CCWGG 1 cut(s) 396
MwoI GCNNNNNNNGC 1 cut(s) 367
NdeII GATC 4 cut(s) 202, 331, 346, 439
NlaIII CATG 3 cut(s) 97, 203, 300
NlaIV GGNNCC 3 cut(s) 18, 71, 333
NspI RCATGY 1 cut(s) 97
NspV TTCGAA 1 cut(s) 63
PagI TCATGA 1 cut(s) 199
PciI ACATGT 1 cut(s) 93
PkrI GCNGC 1 cut(s) 434
Ppu21I YACGTR 1 cut(s) 446
PscI ACATGT 1 cut(s) 93
PshAI GACNNNNGTC 1 cut(s) 288
Psp6I CCWGG 1 cut(s) 394
PspGI CCWGG 1 cut(s) 394
PspN4I GGNNCC 3 cut(s) 18, 71, 333
PspPI GGNCC 1 cut(s) 70
PsuI RGATCY 1 cut(s) 331
PvuII CAGCTG 1 cut(s) 328
RsaI GTAC 3 cut(s) 98, 191, 448
RsaNI GTAC 3 cut(s) 97, 190, 447
SatI GCNGC 1 cut(s) 433
Sau3AI GATC 4 cut(s) 202, 331, 346, 439
Sau96I GGNCC 1 cut(s) 70
ScrFI CCNGG 1 cut(s) 396
SfaNI GCATC 1 cut(s) 180
SfcI CTRYAG 1 cut(s) 309
SfuI TTCGAA 1 cut(s) 63
SinI GGWCC 1 cut(s) 70
Sse9I AATT 2 cut(s) 11, 131
SsiI CCGC 1 cut(s) 466
SspMI CTAG 3 cut(s) 80, 210, 245
StyD4I CCNGG 1 cut(s) 394
TaaI ACNGT 2 cut(s) 50, 230
TaiI ACGT 2 cut(s) 162, 448
TaqI TCGA 2 cut(s) 63, 162
TasI AATT 2 cut(s) 11, 131
TatI WGTACW 1 cut(s) 96
TscAI CASTG 1 cut(s) 276
TseI GCWGC 1 cut(s) 432
TspDTI ATGAA 1 cut(s) 28
TspGWI ACGGA 1 cut(s) 177
TspRI CASTG 1 cut(s) 276
VpaK11BI GGWCC 1 cut(s) 70
XceI RCATGY 1 cut(s) 97
XspI CTAG 3 cut(s) 80, 210, 245
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.