Rmu_sc0002480.1_g000031

HD domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0002480.1
OG0011001
Physical Location & Seq
Forward (+)
128649 .. 129848
1200 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0002480.1_g000031.1.cds

Sequence Viewer

Length: 633 bp
atgagtcgagcgttcctctgtagatcgctcctcctaacaccttctctctactccgctcccctcacatccttgaagcccacactcacctctgcttctccttcttctagggttcgccgtatggccaccgaagcttcgtcgtcaccgtcatcccacaccggcggtgacgccatccaccccgacccaacctcttcctctcctcccgcctcctctgccattgattttctctccctctgccaccgccttaagacgacgaaaagagctggatgggtcaagagagatgtgaaggatccagagtctgtagctgaccatatgtaccgcatgggtttaatggctctcattgcttcggatattcctggtgtcaatcgagacaagtgcataaagatcgccattgttcatgacattgctgaagctattgttggggatataacccccacagatggggtaccaaaggcagagaagaaccgaagagaacaagaggcaatagaccacatgtgcaaattacttggtggaggctcaatagctaaggaaataggtgaattgtggatggagtatgaggggaattcctcccctgaagctcaaattgtcaaggactttgacaaggtatgttgtccgttcatatttcctgctaaatga
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

210

Amino Acids

22.72

Weight (kDa)

7.64

Isoelectric Point (pI)

55.73

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) 442
AccB1I GGYRCC 1 cut(s) 442
AccBSI CCGCTC 1 cut(s) 56
AciI CCGC 5 cut(s) 54, 159, 201, 238, 316
AclWI GGATC 2 cut(s) 281, 294
AcoI YGGCCR 1 cut(s) 120
AcsI RAATTY 1 cut(s) 559
AcuI CTGAAG 2 cut(s) 426, 591
AcyI GRCGYC 1 cut(s) 165
AfaI GTAC 2 cut(s) 314, 444
AfiI CCNNNNNNNGG 2 cut(s) 437, 438
AflII CTTAAG 1 cut(s) 242
AflIII ACRYGT 1 cut(s) 489
AgsI TTSAA 1 cut(s) 73
AjnI CCWGG 1 cut(s) 352
AjuI GAANNNNNNNTTGG 2 cut(s) 399, 431
AluBI AGCT 6 cut(s) 131, 260, 302, 410, 521, 575
AluI AGCT 6 cut(s) 131, 260, 302, 410, 521, 575
Alw26I GTCTC 1 cut(s) 360
AlwI GGATC 2 cut(s) 281, 294
AlwNI CAGNNNCTG 1 cut(s) 296
AoxI GGCC 1 cut(s) 120
ApoI RAATTY 1 cut(s) 559
Asp718I GGTACC 1 cut(s) 442
AsuHPI GGTGA 4 cut(s) 76, 132, 173, 545
BalI TGGCCA 1 cut(s) 122
BamHI GGATCC 1 cut(s) 286
BanI GGYRCC 1 cut(s) 442
BccI CCATC 4 cut(s) 176, 258, 431, 538
BceAI ACGGC 1 cut(s) 99
BcgI CGANNNNNNTGC 4 cut(s) 354, 364, 388, 398
BciT130I CCWGG 1 cut(s) 354
BcoDI GTCTC 1 cut(s) 360
BfaI CTAG 1 cut(s) 105
BfmI CTRYAG 2 cut(s) 19, 297
BfrI CTTAAG 1 cut(s) 242
Bme1390I CCNGG 1 cut(s) 354
BmiI GGNNCC 2 cut(s) 288, 444
BmrFI CCNGG 1 cut(s) 354
BplI GAGNNNNNCTC 1 cut(s) 32
Bpu10I CCTNAGC 1 cut(s) 522
BsaHI GRCGYC 1 cut(s) 165
Bsc4I CCNNNNNNNGG 2 cut(s) 437, 438
Bse118I RCCGGY 1 cut(s) 155
Bse3DI GCAATG 2 cut(s) 336, 399
BseBI CCWGG 1 cut(s) 354
BseGI GGATG 5 cut(s) 65, 146, 168, 269, 549
BseLI CCNNNNNNNGG 2 cut(s) 437, 438
BseMI GCAATG 2 cut(s) 336, 399
BseRI GAGGAG 3 cut(s) 20, 186, 196
BshFI GGCC 1 cut(s) 122
BshNI GGYRCC 1 cut(s) 442
BsiSI CCGG 1 cut(s) 156
BslI CCNNNNNNNGG 2 cut(s) 437, 438
BsmAI GTCTC 1 cut(s) 360
BsnI GGCC 1 cut(s) 122
Bsp143I GATC 3 cut(s) 23, 286, 381
BspACI CCGC 5 cut(s) 54, 159, 201, 238, 316
BspANI GGCC 1 cut(s) 122
BspHI TCATGA 1 cut(s) 394
BspLI GGNNCC 2 cut(s) 288, 444
BspPI GGATC 2 cut(s) 281, 294
BspT107I GGYRCC 1 cut(s) 442
BspTI CTTAAG 1 cut(s) 242
BsrBI CCGCTC 1 cut(s) 56
BsrDI GCAATG 2 cut(s) 336, 399
BsrFI RCCGGY 1 cut(s) 155
BssAI RCCGGY 1 cut(s) 155
BssMI GATC 3 cut(s) 23, 286, 381
BssNI GRCGYC 1 cut(s) 165
Bst2UI CCWGG 1 cut(s) 354
Bst4CI ACNGT 1 cut(s) 144
Bst6I CTCTTC 2 cut(s) 193, 460
BstACI GRCGYC 1 cut(s) 165
BstAFI CTTAAG 1 cut(s) 242
BstDEI CTNAG 1 cut(s) 522
BstF5I GGATG 5 cut(s) 65, 146, 168, 269, 549
BstKTI GATC 3 cut(s) 26, 289, 384
BstMAI GTCTC 1 cut(s) 360
BstMBI GATC 3 cut(s) 23, 286, 381
BstMWI GCNNNNNNNGC 3 cut(s) 128, 209, 338
BstNI CCWGG 1 cut(s) 354
BstNSI RCATGY 1 cut(s) 493
BstSCI CCNGG 1 cut(s) 352
BstSFI CTRYAG 2 cut(s) 19, 297
BstX2I RGATCY 1 cut(s) 286
BstYI RGATCY 1 cut(s) 286
BsuRI GGCC 1 cut(s) 122
BtsCI GGATG 5 cut(s) 65, 146, 168, 269, 549
CaiI CAGNNNCTG 1 cut(s) 296
CciI TCATGA 1 cut(s) 394
Cfr10I RCCGGY 1 cut(s) 155
CseI GACGC 1 cut(s) 173
Csp6I GTAC 2 cut(s) 313, 443
CviAII CATG 3 cut(s) 319, 395, 490
CviQI GTAC 2 cut(s) 313, 443
DdeI CTNAG 1 cut(s) 522
DpnI GATC 3 cut(s) 25, 288, 383
DpnII GATC 3 cut(s) 23, 286, 381
EaeI YGGCCR 1 cut(s) 120
Eam1104I CTCTTC 2 cut(s) 193, 460
EarI CTCTTC 2 cut(s) 193, 460
Eco57I CTGAAG 2 cut(s) 426, 591
EcoRI GAATTC 1 cut(s) 559
EcoRII CCWGG 1 cut(s) 352
FaeI CATG 3 cut(s) 322, 398, 493
FatI CATG 3 cut(s) 318, 394, 489
FauI CCCGC 1 cut(s) 208
FauNDI CATATG 1 cut(s) 309
FokI GGATG 5 cut(s) 52, 133, 155, 276, 556
FspBI CTAG 1 cut(s) 105
HaeIII GGCC 1 cut(s) 122
HapII CCGG 1 cut(s) 156
HgaI GACGC 1 cut(s) 173
Hin1I GRCGYC 1 cut(s) 165
Hin1II CATG 3 cut(s) 322, 398, 493
HindIII AAGCTT 1 cut(s) 129
HinfI GANTC 2 cut(s) 4, 293
HpaII CCGG 1 cut(s) 156
HphI GGTGA 4 cut(s) 76, 132, 173, 545
Hpy188I TCNGA 1 cut(s) 346
Hpy188III TCNNGA 4 cut(s) 271, 290, 365, 395
Hpy99I CGWCG 2 cut(s) 139, 253
HpyAV CCTTC 3 cut(s) 51, 108, 277
HpyCH4III ACNGT 1 cut(s) 144
HpyCH4V TGCA 2 cut(s) 375, 495
HpyF10VI GCNNNNNNNGC 3 cut(s) 128, 209, 338
HpyF3I CTNAG 1 cut(s) 522
Hsp92I GRCGYC 1 cut(s) 165
Hsp92II CATG 3 cut(s) 322, 398, 493
KpnI GGTACC 1 cut(s) 446
Kzo9I GATC 3 cut(s) 23, 286, 381
LmnI GCTCC 2 cut(s) 33, 61
LpnPI CCDG 6 cut(s) 169, 246, 303, 339, 366, 582
MaeI CTAG 1 cut(s) 105
MaeIII GTNAC 2 cut(s) 138, 161
MalI GATC 3 cut(s) 25, 288, 383
MbiI CCGCTC 1 cut(s) 56
MboI GATC 3 cut(s) 23, 286, 381
MboII GAAGA 4 cut(s) 93, 180, 469, 477
MflI RGATCY 1 cut(s) 286
MlsI TGGCCA 1 cut(s) 122
MluCI AATT 4 cut(s) 497, 536, 559, 579
MluNI TGGCCA 1 cut(s) 122
MlyI GAGTC 2 cut(s) 13, 302
Mox20I TGGCCA 1 cut(s) 122
MscI TGGCCA 1 cut(s) 122
MseI TTAA 2 cut(s) 243, 326
Msp20I TGGCCA 1 cut(s) 122
MspCI CTTAAG 1 cut(s) 242
MspI CCGG 1 cut(s) 156
MspR9I CCNGG 1 cut(s) 354
MvaI CCWGG 1 cut(s) 354
MwoI GCNNNNNNNGC 3 cut(s) 128, 209, 338
NdeI CATATG 1 cut(s) 309
NdeII GATC 3 cut(s) 23, 286, 381
NlaIII CATG 3 cut(s) 322, 398, 493
NlaIV GGNNCC 2 cut(s) 288, 444
NmuCI GTSAC 2 cut(s) 138, 161
NspI RCATGY 1 cut(s) 493
PagI TCATGA 1 cut(s) 394
PciI ACATGT 1 cut(s) 489
PcsI WCGNNNNNNNCGW 1 cut(s) 140
PleI GAGTC 2 cut(s) 12, 301
PpsI GAGTC 2 cut(s) 12, 301
PscI ACATGT 1 cut(s) 489
Psp6I CCWGG 1 cut(s) 352
PspGI CCWGG 1 cut(s) 352
PspN4I GGNNCC 2 cut(s) 288, 444
PstNI CAGNNNCTG 1 cut(s) 296
PsuI RGATCY 1 cut(s) 286
RsaI GTAC 2 cut(s) 314, 444
RsaNI GTAC 2 cut(s) 313, 443
SaqAI TTAA 2 cut(s) 243, 326
Sau3AI GATC 3 cut(s) 23, 286, 381
SchI GAGTC 2 cut(s) 13, 302
ScrFI CCNGG 1 cut(s) 354
SfcI CTRYAG 2 cut(s) 19, 297
SgrAI CRCCGGYG 1 cut(s) 155
SmlI CTYRAG 1 cut(s) 242
SmoI CTYRAG 1 cut(s) 242
Sse9I AATT 4 cut(s) 497, 536, 559, 579
SsiI CCGC 5 cut(s) 54, 159, 201, 238, 316
SspMI CTAG 1 cut(s) 105
StyD4I CCNGG 1 cut(s) 352
TaaI ACNGT 1 cut(s) 144
TaqI TCGA 2 cut(s) 7, 364
TasI AATT 4 cut(s) 497, 536, 559, 579
Tru1I TTAA 2 cut(s) 243, 326
Tru9I TTAA 2 cut(s) 243, 326
TseFI GTSAC 2 cut(s) 138, 161
Tsp45I GTSAC 2 cut(s) 138, 161
TspDTI ATGAA 2 cut(s) 383, 604
TspGWI ACGGA 1 cut(s) 600
Vha464I CTTAAG 1 cut(s) 242
XapI RAATTY 1 cut(s) 559
XceI RCATGY 1 cut(s) 493
XspI CTAG 1 cut(s) 105
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.