Rmu_ssc0000255.1_g000040

HD domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000255.1
OG0011001
Physical Location & Seq
Reverse (-)
253163 .. 255480
2318 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_ssc0000255.1_g000040.1.cds

Sequence Viewer

Length: 753 bp
atgagtcgagcgttcctctgtagatcgctcttcctaacaccttctctctactccgctcccctcacatccttgaagcccacactcacctctgcttcttcttcttcttctagggttcaccgtatggccaccgcagcttcgtcgtcaccgtcatctcacaccggcggtgacgccatcaaccccgacccaacctcttcctctcctcccgcctcctctgcaattgattttctctccctctgccaccgccttaagacgacgaaaagagctggatgggttaagagagatgtaaaggatccagagtctgtagctgaccatatgtaccgcatgggtttaatggctctcattgcttcggatattcctggtgtcaatcgagacaagtgcataaagatcgccattgttcatgacattgctgaagctattgttggggatataacccccacagatggggtaccgaaggcagagaagaaccgaagagaacaagaggcaatagaccacatgtgcaaattacttggtggaggctcaatagctaaggaaataggtgaattgtggatggagtatgaggggaattcctcccctgaagctcaaattgtcaaggactttgacaaggtggagatgatacttcaagccttggaatatgagaatggtcaaggaaaggacttggatgagtttttccagtcaactgctgggaagttccagactgatgtaggcaaagcttgggcagcagagatagtatctagaagaaaaaaacaaggctaa
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
HD_3

Protein Analysis

250

Amino Acids

27.13

Weight (kDa)

6.6

Isoelectric Point (pI)

46.97

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
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Orthologous Genes (Group: OG0011001)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G23820 AT2G23820
fragaria_vesca FvH4_4g08640 FvH4_4g08640
malus_domestica MD13G1274800.v1.1
prunus_persica Prupe.1G099200_v2.0.a1 Prupe.1G099200_v2.0.a1
pyrus_communis pycom13g28700
rosa_chinensis RchiOBHm_Chr4g0405131
rosa_laevigata RLG00000008870
rosa_multiflora Rmu_sc0002480.1_g000031 Rmu_ssc0000255.1_g000040
rosa_roxburghii Rroxscaffold_5G00349360
rosa_rugosa Rorug04G0053800 Rorug04G0053900
rosa_samantha Rh4AG129100 Rh4BG122400 Rh4CG136200 Rh4DG122600
rosa_wichuraiana Rw4G010420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 445
AccB1I GGYRCC 1 cut(s) 445
AccBSI CCGCTC 1 cut(s) 56
AciI CCGC 6 cut(s) 54, 129, 162, 204, 241, 319
AclWI GGATC 2 cut(s) 284, 297
AcoI YGGCCR 1 cut(s) 123
AcsI RAATTY 1 cut(s) 562
AcuI CTGAAG 2 cut(s) 429, 594
AcyI GRCGYC 1 cut(s) 168
AfaI GTAC 2 cut(s) 317, 447
AfiI CCNNNNNNNGG 2 cut(s) 440, 441
AflII CTTAAG 1 cut(s) 245
AflIII ACRYGT 1 cut(s) 492
AgsI TTSAA 2 cut(s) 73, 620
AjnI CCWGG 1 cut(s) 355
AjuI GAANNNNNNNTTGG 2 cut(s) 402, 434
AluBI AGCT 7 cut(s) 134, 263, 305, 413, 524, 578, 710
AluI AGCT 7 cut(s) 134, 263, 305, 413, 524, 578, 710
Alw26I GTCTC 1 cut(s) 363
AlwI GGATC 2 cut(s) 284, 297
AlwNI CAGNNNCTG 1 cut(s) 299
AoxI GGCC 1 cut(s) 123
ApeKI GCWGC 2 cut(s) 131, 716
ApoI RAATTY 1 cut(s) 562
Asp718I GGTACC 1 cut(s) 445
AsuHPI GGTGA 5 cut(s) 76, 107, 135, 176, 548
BalI TGGCCA 1 cut(s) 125
BamHI GGATCC 1 cut(s) 289
BanI GGYRCC 1 cut(s) 445
BbvI GCAGC 2 cut(s) 143, 728
BccI CCATC 4 cut(s) 179, 261, 434, 541
BcgI CGANNNNNNTGC 6 cut(s) 120, 154, 357, 367, 391, 401
BciT130I CCWGG 1 cut(s) 357
BcoDI GTCTC 1 cut(s) 363
BfaI CTAG 2 cut(s) 108, 732
BfmI CTRYAG 2 cut(s) 19, 300
BfrI CTTAAG 1 cut(s) 245
BisI GCNGC 2 cut(s) 132, 717
BlsI GCNGC 2 cut(s) 133, 718
Bme1390I CCNGG 1 cut(s) 357
BmiI GGNNCC 2 cut(s) 291, 447
BmrFI CCNGG 1 cut(s) 357
BplI GAGNNNNNCTC 1 cut(s) 32
Bpu10I CCTNAGC 1 cut(s) 525
BsaHI GRCGYC 1 cut(s) 168
BsaJI CCNNGG 1 cut(s) 624
Bsc4I CCNNNNNNNGG 2 cut(s) 440, 441
Bse118I RCCGGY 1 cut(s) 158
Bse1I ACTGG 1 cut(s) 670
Bse3DI GCAATG 2 cut(s) 339, 402
BseBI CCWGG 1 cut(s) 357
BseDI CCNNGG 1 cut(s) 624
BseGI GGATG 4 cut(s) 65, 272, 552, 664
BseLI CCNNNNNNNGG 2 cut(s) 440, 441
BseMI GCAATG 2 cut(s) 339, 402
BseNI ACTGG 1 cut(s) 670
BseRI GAGGAG 2 cut(s) 189, 199
BseXI GCAGC 2 cut(s) 143, 728
BseYI CCCAGC 1 cut(s) 680
BshFI GGCC 1 cut(s) 125
BshNI GGYRCC 1 cut(s) 445
BsiSI CCGG 1 cut(s) 159
BslI CCNNNNNNNGG 2 cut(s) 440, 441
BsmAI GTCTC 1 cut(s) 363
BsnI GGCC 1 cut(s) 125
Bsp143I GATC 3 cut(s) 23, 289, 384
BspACI CCGC 6 cut(s) 54, 129, 162, 204, 241, 319
BspANI GGCC 1 cut(s) 125
BspHI TCATGA 1 cut(s) 397
BspLI GGNNCC 2 cut(s) 291, 447
BspPI GGATC 2 cut(s) 284, 297
BspQI GCTCTTC 1 cut(s) 35
BspT107I GGYRCC 1 cut(s) 445
BspTI CTTAAG 1 cut(s) 245
BsrBI CCGCTC 1 cut(s) 56
BsrDI GCAATG 2 cut(s) 339, 402
BsrFI RCCGGY 1 cut(s) 158
BsrI ACTGG 1 cut(s) 670
BssAI RCCGGY 1 cut(s) 158
BssECI CCNNGG 1 cut(s) 624
BssMI GATC 3 cut(s) 23, 289, 384
BssNI GRCGYC 1 cut(s) 168
BssT1I CCWWGG 1 cut(s) 624
Bst2UI CCWGG 1 cut(s) 357
Bst4CI ACNGT 2 cut(s) 119, 147
Bst6I CTCTTC 3 cut(s) 35, 196, 463
BstACI GRCGYC 1 cut(s) 168
BstAFI CTTAAG 1 cut(s) 245
BstDEI CTNAG 1 cut(s) 525
BstF5I GGATG 4 cut(s) 65, 272, 552, 664
BstKTI GATC 3 cut(s) 26, 292, 387
BstMAI GTCTC 1 cut(s) 363
BstMBI GATC 3 cut(s) 23, 289, 384
BstMWI GCNNNNNNNGC 4 cut(s) 131, 212, 341, 716
BstNI CCWGG 1 cut(s) 357
BstNSI RCATGY 1 cut(s) 496
BstSCI CCNGG 1 cut(s) 355
BstSFI CTRYAG 2 cut(s) 19, 300
BstV1I GCAGC 2 cut(s) 143, 728
BstX2I RGATCY 1 cut(s) 289
BstYI RGATCY 1 cut(s) 289
BsuRI GGCC 1 cut(s) 125
BtsCI GGATG 4 cut(s) 65, 272, 552, 664
CaiI CAGNNNCTG 1 cut(s) 299
CciI TCATGA 1 cut(s) 397
Cfr10I RCCGGY 1 cut(s) 158
CseI GACGC 1 cut(s) 176
Csp6I GTAC 2 cut(s) 316, 446
CviAII CATG 3 cut(s) 322, 398, 493
CviQI GTAC 2 cut(s) 316, 446
DdeI CTNAG 1 cut(s) 525
DpnI GATC 3 cut(s) 25, 291, 386
DpnII GATC 3 cut(s) 23, 289, 384
EaeI YGGCCR 1 cut(s) 123
Eam1104I CTCTTC 3 cut(s) 35, 196, 463
EarI CTCTTC 3 cut(s) 35, 196, 463
Eco130I CCWWGG 1 cut(s) 624
Eco57I CTGAAG 2 cut(s) 429, 594
EcoRI GAATTC 1 cut(s) 562
EcoRII CCWGG 1 cut(s) 355
EcoT14I CCWWGG 1 cut(s) 624
ErhI CCWWGG 1 cut(s) 624
FaeI CATG 3 cut(s) 325, 401, 496
FatI CATG 3 cut(s) 321, 397, 492
FauI CCCGC 1 cut(s) 211
FauNDI CATATG 1 cut(s) 312
Fnu4HI GCNGC 2 cut(s) 132, 717
FokI GGATG 4 cut(s) 52, 279, 559, 671
Fsp4HI GCNGC 2 cut(s) 132, 717
FspBI CTAG 2 cut(s) 108, 732
GluI GCNGC 2 cut(s) 132, 717
GsaI CCCAGC 1 cut(s) 684
HaeIII GGCC 1 cut(s) 125
HapII CCGG 1 cut(s) 159
HgaI GACGC 1 cut(s) 176
Hin1I GRCGYC 1 cut(s) 168
Hin1II CATG 3 cut(s) 325, 401, 496
HincII GTYRAC 1 cut(s) 675
HindII GTYRAC 1 cut(s) 675
HindIII AAGCTT 1 cut(s) 708
HinfI GANTC 2 cut(s) 4, 296
HpaII CCGG 1 cut(s) 159
HphI GGTGA 5 cut(s) 76, 107, 135, 176, 548
Hpy166II GTNNAC 2 cut(s) 115, 675
Hpy188I TCNGA 1 cut(s) 349
Hpy188III TCNNGA 5 cut(s) 293, 368, 398, 691, 732
Hpy8I GTNNAC 2 cut(s) 115, 675
Hpy99I CGWCG 2 cut(s) 142, 256
HpyAV CCTTC 2 cut(s) 51, 445
HpyCH4III ACNGT 2 cut(s) 119, 147
HpyCH4V TGCA 3 cut(s) 215, 378, 498
HpyF10VI GCNNNNNNNGC 4 cut(s) 131, 212, 341, 716
HpyF3I CTNAG 1 cut(s) 525
Hsp92I GRCGYC 1 cut(s) 168
Hsp92II CATG 3 cut(s) 325, 401, 496
KpnI GGTACC 1 cut(s) 449
Kzo9I GATC 3 cut(s) 23, 289, 384
LguI GCTCTTC 1 cut(s) 35
LmnI GCTCC 1 cut(s) 61
LpnPI CCDG 9 cut(s) 172, 249, 306, 342, 369, 585, 666, 683, 704
Lsp1109I GCAGC 2 cut(s) 143, 728
MaeI CTAG 2 cut(s) 108, 732
MaeIII GTNAC 2 cut(s) 141, 164
MalI GATC 3 cut(s) 25, 291, 386
MbiI CCGCTC 1 cut(s) 56
MboI GATC 3 cut(s) 23, 289, 384
MboII GAAGA 9 cut(s) 22, 87, 90, 93, 96, 183, 472, 480, 747
MfeI CAATTG 1 cut(s) 216
MflI RGATCY 1 cut(s) 289
MlsI TGGCCA 1 cut(s) 125
MluCI AATT 5 cut(s) 216, 500, 539, 562, 582
MluNI TGGCCA 1 cut(s) 125
MlyI GAGTC 2 cut(s) 13, 305
Mox20I TGGCCA 1 cut(s) 125
MscI TGGCCA 1 cut(s) 125
MseI TTAA 3 cut(s) 246, 273, 329
Msp20I TGGCCA 1 cut(s) 125
MspCI CTTAAG 1 cut(s) 245
MspI CCGG 1 cut(s) 159
MspR9I CCNGG 1 cut(s) 357
MunI CAATTG 1 cut(s) 216
MvaI CCWGG 1 cut(s) 357
MwoI GCNNNNNNNGC 4 cut(s) 131, 212, 341, 716
NdeI CATATG 1 cut(s) 312
NdeII GATC 3 cut(s) 23, 289, 384
NlaIII CATG 3 cut(s) 325, 401, 496
NlaIV GGNNCC 2 cut(s) 291, 447
NmuCI GTSAC 2 cut(s) 141, 164
NspI RCATGY 1 cut(s) 496
PagI TCATGA 1 cut(s) 397
PciI ACATGT 1 cut(s) 492
PciSI GCTCTTC 1 cut(s) 35
PcsI WCGNNNNNNNCGW 1 cut(s) 143
PkrI GCNGC 2 cut(s) 133, 718
PleI GAGTC 2 cut(s) 12, 304
PpsI GAGTC 2 cut(s) 12, 304
PscI ACATGT 1 cut(s) 492
Psp6I CCWGG 1 cut(s) 355
PspFI CCCAGC 1 cut(s) 680
PspGI CCWGG 1 cut(s) 355
PspN4I GGNNCC 2 cut(s) 291, 447
PstNI CAGNNNCTG 1 cut(s) 299
PsuI RGATCY 1 cut(s) 289
RsaI GTAC 2 cut(s) 317, 447
RsaNI GTAC 2 cut(s) 316, 446
SapI GCTCTTC 1 cut(s) 35
SaqAI TTAA 3 cut(s) 246, 273, 329
SatI GCNGC 2 cut(s) 132, 717
Sau3AI GATC 3 cut(s) 23, 289, 384
SchI GAGTC 2 cut(s) 13, 305
ScrFI CCNGG 1 cut(s) 357
SfcI CTRYAG 2 cut(s) 19, 300
SgrAI CRCCGGYG 1 cut(s) 158
SmlI CTYRAG 1 cut(s) 245
SmoI CTYRAG 1 cut(s) 245
Sse9I AATT 5 cut(s) 216, 500, 539, 562, 582
SsiI CCGC 6 cut(s) 54, 129, 162, 204, 241, 319
SspMI CTAG 2 cut(s) 108, 732
StyD4I CCNGG 1 cut(s) 355
StyI CCWWGG 1 cut(s) 624
TaaI ACNGT 2 cut(s) 119, 147
TaqI TCGA 2 cut(s) 7, 367
TasI AATT 5 cut(s) 216, 500, 539, 562, 582
Tru1I TTAA 3 cut(s) 246, 273, 329
Tru9I TTAA 3 cut(s) 246, 273, 329
TseFI GTSAC 2 cut(s) 141, 164
TseI GCWGC 2 cut(s) 131, 716
Tsp45I GTSAC 2 cut(s) 141, 164
TspDTI ATGAA 1 cut(s) 386
Vha464I CTTAAG 1 cut(s) 245
XapI RAATTY 1 cut(s) 562
XbaI TCTAGA 1 cut(s) 731
XceI RCATGY 1 cut(s) 496
XcmI CCANNNNNNNNNTGG 1 cut(s) 677
XspI CTAG 2 cut(s) 108, 732
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.