Rh4DG012200

Tetratricopeptide repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0012537
Physical Location & Seq
Forward (+)
1939100 .. 1944538
5439 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG012200.1

Sequence Viewer

Length: 978 bp
ATGGCAGAAGCAGAAGGAGGATCAGATAAGAAGTCTGGTGAGTCTCTGAAAGACAAAGGAAATGAGCAATTCAAAGCTGGGAATTACCTCAAAGCCGCCGCTCTCTACACTCAGGCCATTAAGCAAGACCCTCAAAACCCCACTCTTTATAGCAACCGTGCTGCTGCATTTCTGCAATTGGTTAAGCTTAACAAAGCCCTTGCTGATGCAGAAACAACAATTACATTGAATCCCAAGTGGGAAAAGGGATATTTCAGGAAAGGATGCATATTAGAGGCCATGGAGCAATATGATGATGCTCTGACTGCTTTCGAGACAGCTTTGCAATATAACCCAAAAAGTGTAGAAGTATCACGAAAGATGAAGAGAATCTCTCAGTTGACGAGAGATAAAGAACGTGCTGAGGAGGTGGAGAAAATGAGATCAAATGTTGATATGGCAAAACATTTGGATAAACTGAAATCCGAAATGTCTGGAAAGTGTGGGTCTGAAGAACACGAAGATGTGTTTTCTTTTCTGGTTGAGACAATGGAGGCAGCTGTAAAATCATGGCACGAAACTTTGAAAGTGGAGGCTAGGGTTTACTTTCTCCTTGATAAGGAAAAAACAGACACTGAAAAATATGCTCCAGCTGTGAATATTGATAAGGCCTTTGAATCACCCGATACACACAGAAATTGTTTCCCTTTTCTTAGGCAGTATGCTGAGGATTCTTTCTCTAGAGCAGCTTGCTTGGTGACCCCCAAGAGTATCATGTCTTACCCACAGGTTTGGAAAGGTCAAGGATCAAGGAAATGGAAACATGGGCAACAGGATGGTTTCTTTGTTCAGTTTGAGACACCTTTCTTGCGAAAGTTGTGGTTTATTCCTAGTTCCAATGAACTGGGCCGGACATTGTGCAGGGATCCAGAAGATTTAGACATTAGTGCCCATGAATTAATTCCGCGCCTATTCAAAGTGAAGTCCTCCAATTCATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0042802 GO:0042803 GO:0046982 GO:0046983
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
TPR_1 TPR_11 TPR_2 TPR_8

Protein Analysis

325

Amino Acids

37.14

Weight (kDa)

7.6

Isoelectric Point (pI)

38.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_BSK1_C PF25575 16 - 83 9.9e-07 Serine/threonine-protein kinase BSK1-like, TPR repeats
TPR_16 PF13432 18 - 71 2e-06 Tetratricopeptide repeat
TPR_11 PF13414 20 - 60 1.6e-08 TPR repeat
TPR_1 PF00515 82 - 113 7.5e-07 Tetratricopeptide repeat
TPR_2 PF07719 82 - 113 1.7e-06 Tetratricopeptide repeat
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: OG0012537)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G04190
fragaria_vesca FvH4_4g00880 FvH4_4g00880
malus_domestica MD13G1198100.v1.1 MD16G1198200.v1.1
prunus_persica Prupe.1G019800_v2.0.a1
pyrus_communis pycom13g17180 pycom16g16710
rosa_chinensis RchiOBHm_Chr4g0387501
rosa_laevigata RLG00000010117
rosa_multiflora Rmu_sc0009161.1_g000001 Rmu_sc0011414.1_g000005
rosa_roxburghii Rroxscaffold_5G00334180
rosa_rugosa Rorug03G0310200
rosa_samantha Rh4AG016300 Rh4BG011000 Rh4CG017500 Rh4DG012200
rosa_wichuraiana Rw4G001040

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 101
AccII CGCG 1 cut(s) 946
AciI CCGC 3 cut(s) 96, 99, 944
AclWI GGATC 4 cut(s) 28, 793, 899, 912
AcuI CTGAAG 1 cut(s) 510
AfiI CCNNNNNNNGG 1 cut(s) 598
AgsI TTSAA 5 cut(s) 73, 229, 565, 656, 955
AluBI AGCT 6 cut(s) 77, 187, 320, 539, 632, 728
AluI AGCT 6 cut(s) 77, 187, 320, 539, 632, 728
Alw26I GTCTC 4 cut(s) 48, 308, 518, 830
AlwI GGATC 4 cut(s) 28, 793, 899, 912
AlwNI CAGNNNCTG 1 cut(s) 614
AoxI GGCC 4 cut(s) 114, 276, 648, 886
ApeKI GCWGC 4 cut(s) 161, 164, 536, 725
AseI ATTAAT 1 cut(s) 938
Asp700I GAANNNNTTC 1 cut(s) 939
AspLEI GCGC 1 cut(s) 948
AspS9I GGNCC 1 cut(s) 886
AsuHPI GGTGA 3 cut(s) 50, 651, 748
BaeGI GKGCMC 1 cut(s) 931
BamHI GGATCC 1 cut(s) 904
BbvCI CCTCAGC 2 cut(s) 402, 705
BbvI GCAGC 4 cut(s) 148, 151, 548, 737
BccI CCATC 1 cut(s) 809
BcoDI GTCTC 4 cut(s) 48, 308, 518, 830
BfaI CTAG 3 cut(s) 576, 720, 870
BisI GCNGC 6 cut(s) 96, 99, 162, 165, 537, 726
BlsI GCNGC 6 cut(s) 97, 100, 163, 166, 538, 727
BmgT120I GGNCC 1 cut(s) 886
BmiI GGNNCC 1 cut(s) 906
BmrI ACTGGG 1 cut(s) 893
BmsI GCATC 3 cut(s) 196, 254, 286
BmuI ACTGGG 1 cut(s) 893
BplI GAGNNNNNCTC 2 cut(s) 358, 390
BpmI CTGGAG 1 cut(s) 612
Bpu10I CCTNAGC 2 cut(s) 402, 705
BsaJI CCNNGG 1 cut(s) 279
Bsc4I CCNNNNNNNGG 1 cut(s) 598
Bse1I ACTGG 1 cut(s) 888
BseDI CCNNGG 1 cut(s) 279
BseGI GGATG 2 cut(s) 269, 820
BseLI CCNNNNNNNGG 1 cut(s) 598
BseMII CTCAG 4 cut(s) 125, 389, 393, 696
BseNI ACTGG 1 cut(s) 888
BseRI GAGGAG 1 cut(s) 419
BseSI GKGCMC 1 cut(s) 931
BseXI GCAGC 4 cut(s) 148, 151, 548, 737
BseYI CCCAGC 1 cut(s) 77
BsgI GTGCAG 1 cut(s) 919
Bsh1236I CGCG 1 cut(s) 946
BshFI GGCC 4 cut(s) 116, 278, 650, 888
BsiSI CCGG 1 cut(s) 889
BslI CCNNNNNNNGG 1 cut(s) 598
BsmAI GTCTC 4 cut(s) 48, 308, 518, 830
BsnI GGCC 4 cut(s) 116, 278, 650, 888
Bsp1286I GDGCHC 1 cut(s) 931
Bsp143I GATC 4 cut(s) 20, 422, 785, 904
Bsp19I CCATGG 1 cut(s) 279
BspACI CCGC 3 cut(s) 96, 99, 944
BspANI GGCC 4 cut(s) 116, 278, 650, 888
BspCNI CTCAG 4 cut(s) 124, 388, 394, 697
BspFNI CGCG 1 cut(s) 946
BspLI GGNNCC 1 cut(s) 906
BspPI GGATC 4 cut(s) 28, 793, 899, 912
BsrBI CCGCTC 1 cut(s) 101
BsrI ACTGG 1 cut(s) 888
BssECI CCNNGG 1 cut(s) 279
BssMI GATC 4 cut(s) 20, 422, 785, 904
BssT1I CCWWGG 1 cut(s) 279
Bst4CI ACNGT 1 cut(s) 158
Bst6I CTCTTC 1 cut(s) 359
BstC8I GCNNGC 1 cut(s) 730
BstDEI CTNAG 5 cut(s) 111, 375, 402, 692, 705
BstDSI CCRYGG 1 cut(s) 279
BstEII GGTNACC 1 cut(s) 736
BstENI CCTNNNNNAGG 1 cut(s) 596
BstF5I GGATG 2 cut(s) 269, 820
BstFNI CGCG 1 cut(s) 946
BstHHI GCGC 1 cut(s) 948
BstKTI GATC 4 cut(s) 23, 425, 788, 907
BstMAI GTCTC 4 cut(s) 48, 308, 518, 830
BstMBI GATC 4 cut(s) 20, 422, 785, 904
BstMWI GCNNNNNNNGC 1 cut(s) 305
BstPI GGTNACC 1 cut(s) 736
BstSLI GKGCMC 1 cut(s) 931
BstUI CGCG 1 cut(s) 946
BstV1I GCAGC 4 cut(s) 148, 151, 548, 737
BstX2I RGATCY 1 cut(s) 904
BstXI CCANNNNNNTGG 2 cut(s) 771, 883
BstYI RGATCY 1 cut(s) 904
BsuRI GGCC 4 cut(s) 116, 278, 650, 888
BtgI CCRYGG 1 cut(s) 279
BtsCI GGATG 2 cut(s) 269, 820
BtsIMutI CAGTG 1 cut(s) 612
Cac8I GCNNGC 1 cut(s) 730
CaiI CAGNNNCTG 1 cut(s) 614
CfoI GCGC 1 cut(s) 948
Cfr13I GGNCC 1 cut(s) 886
CviAII CATG 5 cut(s) 280, 549, 754, 803, 932
DdeI CTNAG 5 cut(s) 111, 375, 402, 692, 705
DpnI GATC 4 cut(s) 22, 424, 787, 906
DpnII GATC 4 cut(s) 20, 422, 785, 904
Eam1104I CTCTTC 1 cut(s) 359
EarI CTCTTC 1 cut(s) 359
Eco130I CCWWGG 1 cut(s) 279
Eco147I AGGCCT 1 cut(s) 650
Eco57I CTGAAG 1 cut(s) 510
Eco91I GGTNACC 1 cut(s) 736
EcoNI CCTNNNNNAGG 1 cut(s) 596
EcoO65I GGTNACC 1 cut(s) 736
EcoT14I CCWWGG 1 cut(s) 279
EcoT22I ATGCAT 1 cut(s) 269
ErhI CCWWGG 1 cut(s) 279
FaeI CATG 5 cut(s) 283, 552, 757, 806, 935
FatI CATG 5 cut(s) 279, 548, 753, 802, 931
Fnu4HI GCNGC 6 cut(s) 96, 99, 162, 165, 537, 726
FokI GGATG 2 cut(s) 276, 827
Fsp4HI GCNGC 6 cut(s) 96, 99, 162, 165, 537, 726
FspBI CTAG 3 cut(s) 576, 720, 870
GlaI GCGC 1 cut(s) 947
GluI GCNGC 6 cut(s) 96, 99, 162, 165, 537, 726
GsaI CCCAGC 1 cut(s) 81
GsuI CTGGAG 1 cut(s) 612
HaeIII GGCC 4 cut(s) 116, 278, 650, 888
HapII CCGG 1 cut(s) 889
HhaI GCGC 1 cut(s) 948
Hin1II CATG 5 cut(s) 283, 552, 757, 806, 935
Hin6I GCGC 1 cut(s) 946
HinP1I GCGC 1 cut(s) 946
HincII GTYRAC 1 cut(s) 381
HindII GTYRAC 1 cut(s) 381
HindIII AAGCTT 1 cut(s) 185
HinfI GANTC 5 cut(s) 41, 229, 369, 656, 710
HpaII CCGG 1 cut(s) 889
HphI GGTGA 3 cut(s) 50, 651, 748
Hpy166II GTNNAC 2 cut(s) 381, 583
Hpy188I TCNGA 5 cut(s) 25, 48, 303, 466, 490
Hpy188III TCNNGA 6 cut(s) 256, 313, 354, 474, 720, 908
Hpy8I GTNNAC 2 cut(s) 381, 583
HpyAV CCTTC 1 cut(s) 8
HpyCH4III ACNGT 1 cut(s) 158
HpyCH4IV ACGT 1 cut(s) 397
HpyCH4V TGCA 6 cut(s) 167, 175, 209, 267, 325, 900
HpyF10VI GCNNNNNNNGC 1 cut(s) 305
HpyF3I CTNAG 5 cut(s) 111, 375, 402, 692, 705
HpySE526I ACGT 1 cut(s) 397
Hsp92II CATG 5 cut(s) 283, 552, 757, 806, 935
HspAI GCGC 1 cut(s) 946
Kzo9I GATC 4 cut(s) 20, 422, 785, 904
LmnI GCTCC 2 cut(s) 283, 631
Lsp1109I GCAGC 4 cut(s) 148, 151, 548, 737
LweI GCATC 3 cut(s) 196, 254, 286
MaeI CTAG 3 cut(s) 576, 720, 870
MaeII ACGT 1 cut(s) 397
MaeIII GTNAC 1 cut(s) 736
MalI GATC 4 cut(s) 22, 424, 787, 906
MbiI CCGCTC 1 cut(s) 101
MboI GATC 4 cut(s) 20, 422, 785, 904
MboII GAAGA 4 cut(s) 376, 503, 512, 923
MfeI CAATTG 1 cut(s) 176
MflI RGATCY 1 cut(s) 904
MhlI GDGCHC 1 cut(s) 931
MluCI AATT 8 cut(s) 68, 82, 176, 219, 676, 935, 939, 970
MlyI GAGTC 1 cut(s) 50
Mph1103I ATGCAT 1 cut(s) 269
MroXI GAANNNNTTC 1 cut(s) 939
MseI TTAA 4 cut(s) 120, 183, 189, 938
MslI CAYNNNNRTG 1 cut(s) 501
MspA1I CMGCKG 2 cut(s) 539, 632
MspI CCGG 1 cut(s) 889
MunI CAATTG 1 cut(s) 176
MvnI CGCG 1 cut(s) 946
MwoI GCNNNNNNNGC 1 cut(s) 305
NcoI CCATGG 1 cut(s) 279
NdeII GATC 4 cut(s) 20, 422, 785, 904
NlaIII CATG 5 cut(s) 283, 552, 757, 806, 935
NlaIV GGNNCC 1 cut(s) 906
NmuCI GTSAC 1 cut(s) 736
NsiI ATGCAT 1 cut(s) 269
PceI AGGCCT 1 cut(s) 650
PdmI GAANNNNTTC 1 cut(s) 939
PfeI GAWTC 4 cut(s) 229, 369, 656, 710
PkrI GCNGC 6 cut(s) 97, 100, 163, 166, 538, 727
PleI GAGTC 1 cut(s) 49
PpsI GAGTC 1 cut(s) 49
PshBI ATTAAT 1 cut(s) 938
PspEI GGTNACC 1 cut(s) 736
PspFI CCCAGC 1 cut(s) 77
PspN4I GGNNCC 1 cut(s) 906
PspPI GGNCC 1 cut(s) 886
PstNI CAGNNNCTG 1 cut(s) 614
PsuI RGATCY 1 cut(s) 904
PvuII CAGCTG 2 cut(s) 539, 632
RseI CAYNNNNRTG 1 cut(s) 501
SaqAI TTAA 4 cut(s) 120, 183, 189, 938
SatI GCNGC 6 cut(s) 96, 99, 162, 165, 537, 726
Sau3AI GATC 4 cut(s) 20, 422, 785, 904
Sau96I GGNCC 1 cut(s) 886
SchI GAGTC 1 cut(s) 50
SduI GDGCHC 1 cut(s) 931
SfaNI GCATC 3 cut(s) 196, 254, 286
SmiMI CAYNNNNRTG 1 cut(s) 501
Sse9I AATT 8 cut(s) 68, 82, 176, 219, 676, 935, 939, 970
SseBI AGGCCT 1 cut(s) 650
SsiI CCGC 3 cut(s) 96, 99, 944
SspI AATATT 1 cut(s) 640
SspMI CTAG 3 cut(s) 576, 720, 870
StuI AGGCCT 1 cut(s) 650
StyI CCWWGG 1 cut(s) 279
TaaI ACNGT 1 cut(s) 158
TaiI ACGT 1 cut(s) 400
TaqI TCGA 1 cut(s) 312
TasI AATT 8 cut(s) 68, 82, 176, 219, 676, 935, 939, 970
TauI GCSGC 2 cut(s) 98, 101
TfiI GAWTC 4 cut(s) 229, 369, 656, 710
Tru1I TTAA 4 cut(s) 120, 183, 189, 938
Tru9I TTAA 4 cut(s) 120, 183, 189, 938
TscAI CASTG 1 cut(s) 619
TseFI GTSAC 1 cut(s) 736
TseI GCWGC 4 cut(s) 161, 164, 536, 725
Tsp45I GTSAC 1 cut(s) 736
TspDTI ATGAA 4 cut(s) 377, 894, 948, 963
TspRI CASTG 1 cut(s) 619
VspI ATTAAT 1 cut(s) 938
XagI CCTNNNNNAGG 1 cut(s) 596
XbaI TCTAGA 1 cut(s) 719
XmnI GAANNNNTTC 1 cut(s) 939
XspI CTAG 3 cut(s) 576, 720, 870
Zsp2I ATGCAT 1 cut(s) 269
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.