Rh6BG170400

plant mutator transposase zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000252
Physical Location & Seq
Reverse (-)
28175592 .. 28176068
477 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG170400.1

Sequence Viewer

Length: 477 bp
ATGAGAAGTAAGGTGGAGAAAGAGAACTACGAAGATTTCAAGTGTTTCTCATATAGTTTTCCTAGTGCAACTCATTATGACATGGAAAAACAAGCAAATGATATCTACCCAACTTCAAAGTTCAAAGAGTTTCGAGATGAATTAACAGGTAAAATGTATTGTGACTTTATTTCAATTGAAGTGGATAATTCAATTTTACAGTACATAGTTTTGGAAGATAACAAGATTGGGGAGATGAAGAAAACTGTTCATTTTCATGTTTCATTCAATGAAGAGAATGATGAAGTTAACTGCAATTGCTGCCTCTTTCAGTTTAGAGGTATATTATGCAGGCATACAATATATGTTTTGATTCGTCATAAAAAAAACATGATTCCAGATAAATATATCATGAGAAGATGGAGGAAGGATGTGAAGAGATGCCACACAAGGGTTAAAATCAGTTATGGCGGATGGGACGCTAGACCTGAATCATAA
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
SWIM

Protein Analysis

158

Amino Acids

19.08

Weight (kDa)

8.41

Isoelectric Point (pI)

46.36

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SWIM PF04434 85 - 119 2.5e-06 SWIM zinc finger
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: OG0000252)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G80010
fragaria_vesca FvH4_2g24400 FvH4_2g24401 FvH4_2g28851 FvH4_2g28851 FvH4_2g28851 FvH4_2g28851 FvH4_3g17011 FvH4_4g07801 FvH4_6g23211 FvH4_6g29411 FvH4_6g29411 FvH4_6g29411 FvH4_6g29432 FvH4_6g29432 FvH4_7g19111
malus_domestica MD05G1027500.v1.1 MD08G1156300.v1.1 MD15G1127000.v1.1 MD17G1214400.v1.1 MD17G1214600.v1.1
prunus_persica Prupe.1G268400_v2.0.a1 Prupe.1G482700_v2.0.a1 Prupe.2G013600_v2.0.a1 Prupe.2G072300_v2.0.a1 Prupe.3G090300_v2.0.a1 Prupe.3G090300_v2.0.a1 Prupe.3G090500_v2.0.a1 Prupe.4G256500_v2.0.a1 Prupe.6G116200_v2.0.a1 Prupe.7G015200_v2.0.a1 Prupe.8G014900_v2.0.a1
pyrus_communis pycom05g24990 pycom12g03510 pycom16g12560 pycom17g21900 pycom17g21920
rosa_chinensis RchiOBHm_Chr2g0134881 RchiOBHm_Chr2g0134921 RchiOBHm_Chr6g0297621
rosa_laevigata RLG00000011576 RLG00000012728 RLG00000013853 RLG00000014630 RLG00000019427 RLG00000019430 RLG00000020625
rosa_multiflora Rmu_sc0001385.1_g000003 Rmu_sc0001541.1_g000005 Rmu_sc0001719.1_g000010 Rmu_sc0001719.1_g000011 Rmu_sc0002283.1_g000033 Rmu_sc0004350.1_g000004 Rmu_sc0004350.1_g000005 Rmu_sc0004406.1_g000014 Rmu_sc0004564.1_g000003 Rmu_sc0005198.1_g000003 Rmu_sc0005198.1_g000004 Rmu_sc0005198.1_g000005 Rmu_sc0023742.1_g000001 Rmu_sc0023743.1_g000001 Rmu_ssc0000291.1_g000011 Rmu_ssc0000291.1_g000012
rosa_roxburghii Rroxscaffold_2G00109640 Rroxscaffold_2G00109680 Rroxscaffold_2G00114370 Rroxscaffold_2G00135950 Rroxscaffold_3G00225840 Rroxscaffold_3G00227000 Rroxscaffold_7G00170310 Rroxscaffold_7G00172860 Rroxscaffold_7G00179400 Rroxscaffold_7G00198760
rosa_rugosa Rorug02G0321200 Rorug06G0274600 Rorug06G0274700 Rorug06G0274800 Rorug06G0274800 Rorug07G0274900 Rorug07G0275000 Rorug07G0340400
rosa_samantha Rh2AG372600 Rh2AG373100 Rh2BG044500 Rh2BG378300 Rh2BG378700 Rh2CG315500 Rh2CG356800 Rh2CG357600 Rh2DG395100 Rh2DG395500 Rh2DG586300 Rh3BG359900 Rh4BG117400 Rh4BG117500 Rh4DG152400 Rh4DG152500 Rh6AG165100 Rh6AG385200 Rh6BG170300 Rh6BG170400 Rh6BG170500 Rh6BG173200 Rh6BG173300 Rh6BG208000 Rh6BG208100 Rh6BG393300 Rh6CG163800 Rh6CG163900 Rh6CG164000 Rh6CG167300 Rh6CG241900 Rh6CG399100 Rh6DG159100 Rh6DG159200 Rh6DG233500 Rh6DG385700 Rh7AG495200 Rh7AG495300 Rh7BG402900 Rh7BG466600 Rh7BG466700 Rh7DG479900
rosa_wichuraiana Rw0G005930 Rw1G039690 Rw2G030340 Rw2G030400 Rw4G013030 Rw4G013040 Rw5G023130 Rw6G014200 Rw6G014280 Rw6G033560 Rw7G041860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 450
AfaI GTAC 1 cut(s) 203
AfiI CCNNNNNNNGG 1 cut(s) 430
AgsI TTSAA 7 cut(s) 40, 117, 124, 174, 179, 192, 268
ApeKI GCWGC 1 cut(s) 300
BbvI GCAGC 1 cut(s) 287
BccI CCATC 2 cut(s) 393, 447
BfaI CTAG 2 cut(s) 63, 462
BisI GCNGC 1 cut(s) 301
BlsI GCNGC 1 cut(s) 302
BmsI GCATC 1 cut(s) 410
Bsc4I CCNNNNNNNGG 1 cut(s) 430
BseGI GGATG 2 cut(s) 415, 458
BseLI CCNNNNNNNGG 1 cut(s) 430
BseXI GCAGC 1 cut(s) 287
BslFI GGGAC 1 cut(s) 470
BslI CCNNNNNNNGG 1 cut(s) 430
BsmFI GGGAC 1 cut(s) 470
BspACI CCGC 1 cut(s) 450
BspHI TCATGA 1 cut(s) 390
Bst4CI ACNGT 2 cut(s) 201, 247
Bst6I CTCTTC 2 cut(s) 267, 410
BstAPI GCANNNNNTGC 1 cut(s) 300
BstC8I GCNNGC 1 cut(s) 332
BstF5I GGATG 2 cut(s) 415, 458
BstMWI GCNNNNNNNGC 1 cut(s) 300
BstV1I GCAGC 1 cut(s) 287
BtsCI GGATG 2 cut(s) 415, 458
Cac8I GCNNGC 1 cut(s) 332
CciI TCATGA 1 cut(s) 390
CseI GACGC 1 cut(s) 467
Csp6I GTAC 1 cut(s) 202
CspCI CAANNNNNGTGG 2 cut(s) 162, 197
CviAII CATG 4 cut(s) 82, 257, 370, 391
CviQI GTAC 1 cut(s) 202
Eam1104I CTCTTC 2 cut(s) 267, 410
EarI CTCTTC 2 cut(s) 267, 410
EciI GGCGGA 1 cut(s) 465
Eco32I GATATC 1 cut(s) 103
EcoRV GATATC 1 cut(s) 103
FaeI CATG 4 cut(s) 85, 260, 373, 394
FaqI GGGAC 1 cut(s) 470
FatI CATG 4 cut(s) 81, 256, 369, 390
Fnu4HI GCNGC 1 cut(s) 301
FokI GGATG 2 cut(s) 422, 465
Fsp4HI GCNGC 1 cut(s) 301
FspBI CTAG 2 cut(s) 63, 462
GluI GCNGC 1 cut(s) 301
HgaI GACGC 1 cut(s) 467
Hin1II CATG 4 cut(s) 85, 260, 373, 394
HincII GTYRAC 1 cut(s) 289
HindII GTYRAC 1 cut(s) 289
HinfI GANTC 3 cut(s) 352, 373, 470
HpaI GTTAAC 1 cut(s) 289
Hpy166II GTNNAC 1 cut(s) 289
Hpy188III TCNNGA 3 cut(s) 134, 377, 391
Hpy8I GTNNAC 1 cut(s) 289
HpyAV CCTTC 1 cut(s) 400
HpyCH4III ACNGT 2 cut(s) 201, 247
HpyCH4V TGCA 3 cut(s) 68, 294, 330
HpyF10VI GCNNNNNNNGC 1 cut(s) 300
Hsp92II CATG 4 cut(s) 85, 260, 373, 394
KspAI GTTAAC 1 cut(s) 289
LpnPI CCDG 3 cut(s) 132, 316, 390
Lsp1109I GCAGC 1 cut(s) 287
LweI GCATC 1 cut(s) 410
MaeI CTAG 2 cut(s) 63, 462
MaeIII GTNAC 1 cut(s) 161
MboII GAAGA 6 cut(s) 44, 227, 250, 284, 408, 427
MfeI CAATTG 2 cut(s) 174, 295
MluCI AATT 5 cut(s) 140, 174, 187, 192, 295
MnlI CCTC 3 cut(s) 311, 314, 396
MseI TTAA 3 cut(s) 143, 288, 435
MslI CAYNNNNRTG 1 cut(s) 255
MunI CAATTG 2 cut(s) 174, 295
MwoI GCNNNNNNNGC 1 cut(s) 300
NlaIII CATG 4 cut(s) 85, 260, 373, 394
NmuCI GTSAC 1 cut(s) 161
PagI TCATGA 1 cut(s) 390
PfeI GAWTC 3 cut(s) 352, 373, 470
PkrI GCNGC 1 cut(s) 302
RsaI GTAC 1 cut(s) 203
RsaNI GTAC 1 cut(s) 202
RseI CAYNNNNRTG 1 cut(s) 255
SaqAI TTAA 3 cut(s) 143, 288, 435
SatI GCNGC 1 cut(s) 301
SetI ASST 4 cut(s) 15, 151, 322, 469
SfaNI GCATC 1 cut(s) 410
SmiMI CAYNNNNRTG 1 cut(s) 255
Sse9I AATT 5 cut(s) 140, 174, 187, 192, 295
SsiI CCGC 1 cut(s) 450
SspMI CTAG 2 cut(s) 63, 462
TaaI ACNGT 2 cut(s) 201, 247
TaqI TCGA 1 cut(s) 133
TasI AATT 5 cut(s) 140, 174, 187, 192, 295
TatI WGTACW 1 cut(s) 201
TfiI GAWTC 3 cut(s) 352, 373, 470
Tru1I TTAA 3 cut(s) 143, 288, 435
Tru9I TTAA 3 cut(s) 143, 288, 435
TseFI GTSAC 1 cut(s) 161
TseI GCWGC 1 cut(s) 300
Tsp45I GTSAC 1 cut(s) 161
TspDTI ATGAA 7 cut(s) 153, 239, 245, 251, 252, 285, 297
XspI CTAG 2 cut(s) 63, 462
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.