MD07G1082400.v1.1

Replication factor C subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr07
OG0014794
Physical Location & Seq
Reverse (-)
8079187 .. 8080318
1132 bp
Loading structure...
UTR
Exon/CDS
Intron
MD07G1082400.v1.1.491

Sequence Viewer

Length: 768 bp
ATGGTAGGTAGCATAGAAGTACATGTAAAGCAATCCCCTCAACATGTAGAAGTGAATCTCTCTGAACTGAAGGGCTACGAGAAGCATGTCATTGTGGAACTCATGAGAGAGACACAGGACAATATGCTGAACAAGTCTCTGCCATGCAGCCTTGACAACTGTCGAGACAAGCTGTCGACCGATGCCCTACTGTATATAAAGTGGCTTTTAGAAAGGTATAAAGGGTGTAATAAGGTCTTCTTCTGCTGCTCTGATATCTCAAAGCTTCAGGCAATCAAATCGCTTTGCACCATCGTTGAGCTTTTACCTCCTTCCAAGAATGAGATTGTTGAAGTTTTAAAATTCATATCTAAAAAAGAAGGCATAGATTTGCCACATGAACTGGCTGAAAGGTTTGCCCAAAATTCGAATAATAGTCTCCGTCAAGCCATTCGTTCATTCGAGGCTACTTGGAAGAAAAGCTATCCTTTTAAAGAAGATCAAGTAATTCTGACAGGTTGGGAAGATAACATTGCAGATATTGCCAAGAATATGATTGAAGAGCAAAGCCCAAAACAGTATGCTCCTTTGAACAAATTAATATGTAGTAAGAGTACACTACACAATATATGTACCACGGAAAACTATGTTCGCCTTGTTCTCAAATTTAGGTATATATTATTGTATGAGCCGGTTTTATATAACCTCCCCCTCACAGTACGTAGTGAATCTCACATCTGTGTTGTGAGATGGAGGTACAAAATTTGTGTTAGCCCAATTCAACTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 map03030 map03420 map03430
Pfam Domains
Protein Families
No domains found.

Protein Analysis

256

Amino Acids

29.6

Weight (kDa)

8.44

Isoelectric Point (pI)

52.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RCF1-5-like_lid PF21960 111 - 149 1.7e-06 RCF1/5-like, AAA+ ATPase lid domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014794)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g08091
malus_domestica MD02G1230000.v1.1 MD07G1082400.v1.1
prunus_persica Prupe.2G108000_v2.0.a1
pyrus_communis pycom07g06570 pycom07g06580
rosa_chinensis RchiOBHm_Chr1g0341191
rosa_laevigata RLG00000029069
rosa_multiflora Rmu_sc0004092.1_g000026 Rmu_sc0010892.1_g000010
rosa_roxburghii Rroxscaffold_4G00311790
rosa_rugosa Rorug01G0159600.1
rosa_samantha Rh1AG173900 Rh1BG141800 Rh1CG161700 Rh1DG173800
rosa_wichuraiana Rw1G014440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 176
AcsI RAATTY 4 cut(s) 341, 403, 644, 741
AcuI CTGAAG 2 cut(s) 89, 251
AfaI GTAC 5 cut(s) 21, 595, 613, 699, 737
AflIII ACRYGT 2 cut(s) 22, 43
AgsI TTSAA 4 cut(s) 332, 539, 571, 761
AhdI GACNNNNNGTC 1 cut(s) 172
AleI CACNNNNGTG 1 cut(s) 717
AluBI AGCT 4 cut(s) 172, 265, 301, 462
AluI AGCT 4 cut(s) 172, 265, 301, 462
Alw26I GTCTC 4 cut(s) 104, 141, 159, 422
ApeKI GCWGC 2 cut(s) 147, 246
ApoI RAATTY 4 cut(s) 341, 403, 644, 741
AseI ATTAAT 1 cut(s) 578
AsuII TTCGAA 1 cut(s) 407
BbsI GAAGAC 1 cut(s) 229
BbvI GCAGC 2 cut(s) 159, 233
BccI CCATC 2 cut(s) 299, 723
BcgI CGANNNNNNTGC 2 cut(s) 261, 295
BcoDI GTCTC 4 cut(s) 104, 141, 159, 422
BisI GCNGC 2 cut(s) 148, 247
BlsI GCNGC 2 cut(s) 149, 248
BmeRI GACNNNNNGTC 1 cut(s) 172
BmsI GCATC 1 cut(s) 172
BoxI GACNNNNGTC 1 cut(s) 159
BpiI GAAGAC 1 cut(s) 229
Bpu14I TTCGAA 1 cut(s) 407
BsaAI YACGTR 1 cut(s) 701
BsaJI CCNNGG 1 cut(s) 615
Bse118I RCCGGY 1 cut(s) 670
Bse1I ACTGG 1 cut(s) 387
Bse3DI GCAATG 1 cut(s) 510
BseDI CCNNGG 1 cut(s) 615
BseMI GCAATG 1 cut(s) 510
BseNI ACTGG 1 cut(s) 387
BseXI GCAGC 2 cut(s) 159, 233
Bsh1285I CGRYCG 1 cut(s) 180
BsiEI CGRYCG 1 cut(s) 180
BsiSI CCGG 1 cut(s) 671
BsmAI GTCTC 4 cut(s) 104, 141, 159, 422
Bsp119I TTCGAA 1 cut(s) 407
Bsp143I GATC 1 cut(s) 478
BspHI TCATGA 1 cut(s) 102
BspQI GCTCTTC 1 cut(s) 534
BspT104I TTCGAA 1 cut(s) 407
BsrDI GCAATG 1 cut(s) 510
BsrFI RCCGGY 1 cut(s) 670
BsrI ACTGG 1 cut(s) 387
BssAI RCCGGY 1 cut(s) 670
BssECI CCNNGG 1 cut(s) 615
BssMI GATC 1 cut(s) 478
Bst4CI ACNGT 5 cut(s) 161, 192, 558, 697, 765
Bst6I CTCTTC 1 cut(s) 534
BstAPI GCANNNNNTGC 1 cut(s) 521
BstBAI YACGTR 1 cut(s) 701
BstBI TTCGAA 1 cut(s) 407
BstDSI CCRYGG 1 cut(s) 615
BstKTI GATC 1 cut(s) 481
BstMAI GTCTC 4 cut(s) 104, 141, 159, 422
BstMBI GATC 1 cut(s) 478
BstMCI CGRYCG 1 cut(s) 180
BstMWI GCNNNNNNNGC 1 cut(s) 521
BstNSI RCATGY 3 cut(s) 26, 47, 89
BstPAI GACNNNNGTC 1 cut(s) 159
BstSNI TACGTA 1 cut(s) 701
BstV1I GCAGC 2 cut(s) 159, 233
BstV2I GAAGAC 1 cut(s) 229
BtgI CCRYGG 1 cut(s) 615
CciI TCATGA 1 cut(s) 102
Cfr10I RCCGGY 1 cut(s) 670
Csp6I GTAC 5 cut(s) 20, 594, 612, 698, 736
CviAII CATG 6 cut(s) 23, 44, 86, 103, 144, 377
CviQI GTAC 5 cut(s) 20, 594, 612, 698, 736
DpnI GATC 1 cut(s) 480
DpnII GATC 1 cut(s) 478
DraI TTTAAA 2 cut(s) 339, 472
DriI GACNNNNNGTC 1 cut(s) 172
Eam1104I CTCTTC 1 cut(s) 534
Eam1105I GACNNNNNGTC 1 cut(s) 172
EarI CTCTTC 1 cut(s) 534
Eco105I TACGTA 1 cut(s) 701
Eco32I GATATC 1 cut(s) 256
Eco57I CTGAAG 2 cut(s) 89, 251
EcoRV GATATC 1 cut(s) 256
FaeI CATG 6 cut(s) 26, 47, 89, 106, 147, 380
FalI AAGNNNNNCTT 4 cut(s) 224, 256, 451, 483
FatI CATG 6 cut(s) 22, 43, 85, 102, 143, 376
FblI GTMKAC 1 cut(s) 176
Fnu4HI GCNGC 2 cut(s) 148, 247
Fsp4HI GCNGC 2 cut(s) 148, 247
GluI GCNGC 2 cut(s) 148, 247
HapII CCGG 1 cut(s) 671
Hin1II CATG 6 cut(s) 26, 47, 89, 106, 147, 380
HincII GTYRAC 1 cut(s) 177
HindII GTYRAC 1 cut(s) 177
HindIII AAGCTT 1 cut(s) 263
HinfI GANTC 2 cut(s) 55, 707
HpaII CCGG 1 cut(s) 671
Hpy166II GTNNAC 2 cut(s) 177, 596
Hpy188I TCNGA 3 cut(s) 64, 253, 492
Hpy188III TCNNGA 2 cut(s) 103, 164
Hpy8I GTNNAC 2 cut(s) 177, 596
HpyAV CCTTC 3 cut(s) 64, 321, 353
HpyCH4III ACNGT 5 cut(s) 161, 192, 558, 697, 765
HpyCH4IV ACGT 1 cut(s) 700
HpyCH4V TGCA 3 cut(s) 147, 288, 515
HpyF10VI GCNNNNNNNGC 1 cut(s) 521
HpySE526I ACGT 1 cut(s) 700
Hsp92II CATG 6 cut(s) 26, 47, 89, 106, 147, 380
Kzo9I GATC 1 cut(s) 478
LguI GCTCTTC 1 cut(s) 534
LmnI GCTCC 1 cut(s) 568
LpnPI CCDG 5 cut(s) 101, 254, 368, 480, 684
Lsp1109I GCAGC 2 cut(s) 159, 233
LweI GCATC 1 cut(s) 172
MaeII ACGT 1 cut(s) 700
MalI GATC 1 cut(s) 480
MboI GATC 1 cut(s) 478
MboII GAAGA 6 cut(s) 229, 232, 466, 488, 515, 551
MluCI AATT 7 cut(s) 341, 403, 486, 575, 644, 741, 756
MnlI CCTC 6 cut(s) 48, 318, 436, 695, 701, 726
MseI TTAA 3 cut(s) 338, 471, 578
MslI CAYNNNNRTG 1 cut(s) 717
MspI CCGG 1 cut(s) 671
MwoI GCNNNNNNNGC 1 cut(s) 521
NdeII GATC 1 cut(s) 478
NlaIII CATG 6 cut(s) 26, 47, 89, 106, 147, 380
NspI RCATGY 3 cut(s) 26, 47, 89
NspV TTCGAA 1 cut(s) 407
OliI CACNNNNGTG 1 cut(s) 717
PagI TCATGA 1 cut(s) 102
PciI ACATGT 2 cut(s) 22, 43
PciSI GCTCTTC 1 cut(s) 534
PfeI GAWTC 2 cut(s) 55, 707
PkrI GCNGC 2 cut(s) 149, 248
Ppu21I YACGTR 1 cut(s) 701
PscI ACATGT 2 cut(s) 22, 43
PshAI GACNNNNGTC 1 cut(s) 159
PshBI ATTAAT 1 cut(s) 578
RsaI GTAC 5 cut(s) 21, 595, 613, 699, 737
RsaNI GTAC 5 cut(s) 20, 594, 612, 698, 736
RseI CAYNNNNRTG 1 cut(s) 717
SalI GTCGAC 1 cut(s) 175
SapI GCTCTTC 1 cut(s) 534
SaqAI TTAA 3 cut(s) 338, 471, 578
SatI GCNGC 2 cut(s) 148, 247
Sau3AI GATC 1 cut(s) 478
SfaNI GCATC 1 cut(s) 172
SfuI TTCGAA 1 cut(s) 407
SmiMI CAYNNNNRTG 1 cut(s) 717
SnaBI TACGTA 1 cut(s) 701
Sse9I AATT 7 cut(s) 341, 403, 486, 575, 644, 741, 756
TaaI ACNGT 5 cut(s) 161, 192, 558, 697, 765
TaiI ACGT 1 cut(s) 703
TaqI TCGA 4 cut(s) 163, 176, 407, 441
TaqII GACCGA 1 cut(s) 194
TasI AATT 7 cut(s) 341, 403, 486, 575, 644, 741, 756
TatI WGTACW 2 cut(s) 19, 593
TfiI GAWTC 2 cut(s) 55, 707
Tru1I TTAA 3 cut(s) 338, 471, 578
Tru9I TTAA 3 cut(s) 338, 471, 578
TseI GCWGC 2 cut(s) 147, 246
TspDTI ATGAA 3 cut(s) 334, 393, 426
TspGWI ACGGA 2 cut(s) 410, 632
VspI ATTAAT 1 cut(s) 578
XapI RAATTY 4 cut(s) 341, 403, 644, 741
XceI RCATGY 3 cut(s) 26, 47, 89
XmiI GTMKAC 1 cut(s) 176
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.