RchiOBHm_Chr5g0081471

zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000258
Physical Location & Seq
Reverse (-)
87457751 .. 87458607
857 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ35572

Sequence Viewer

Length: 591 bp
ATGCGTCACAAACAAAATGAGATATCCTTGGAGACCTTGACGACTCGCATCCGAGTTGAGGAGGAAGCAAGAGGTCAAGATGTTCTTATGCAAGATACAAACAATGACACCTCCAAGCCAAAGAAGAAAAATATGAAAAAAGTTGGTAAACCTCACCAACAGAATAAAGGCAAACCAAGCTATGTGAATAAGAACCAATATCCTCCTTCAGAAAATAAGCAACAATATGCTTGTTGTTATGTTTGTGGCAAAAGTGGGCATATTGCTCGAAATTGCAATTATCGAAAACGTGAGGCTATTCCTCAAGCTCACGTCACTGAAGAACCATATGTGGCAATGATAACTGATGTAAATATGGTTCAAAGTGTTGAAGGATGGTGGGCAGATTGTGGTGCTAATAGGCATATCTGCTATGATAAAGATTGGTTCAAGAAATACACTCCTTTTAAGGAGCCCAAAACAGTTATGCTTGGAGATTCACATACTACTCATGTGCTTGGAACTGGTGAGGTGGAACTCAAATTTACTTCTGATAGGATGCTAACTTTGAAAGATGTGTTGCATACACCCTCCATGAGAAAAAAAATTTGA
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
Retrotran_gag_2

Protein Analysis

196

Amino Acids

22.69

Weight (kDa)

9.29

Isoelectric Point (pI)

36.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Pol_BBD PF22936 126 - 195 1.1e-19 Pol polyprotein, beta-barrel domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000258)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G00980
fragaria_vesca FvH4_1g25682 FvH4_2g13961 FvH4_2g20162 FvH4_2g24753 FvH4_3g12191 FvH4_3g12632 FvH4_3g16171 FvH4_4g05871 FvH4_4g05873 FvH4_4g10121 FvH4_4g15488 FvH4_4g23911 FvH4_4g27782 FvH4_5g08912 FvH4_5g23001 FvH4_5g24552 FvH4_5g32801 FvH4_5g32802 FvH4_6g05093 FvH4_6g19722 FvH4_6g20391 FvH4_6g33792 FvH4_7g01381 FvH4_7g16761 FvH4_7g16761 FvH4_7g16761
malus_domestica MD01G1082500.v1.1 MD15G1436400.v1.1
prunus_persica Prupe.2G021400_v2.0.a1 Prupe.2G052400_v2.0.a1 Prupe.2G065000_v2.0.a1 Prupe.2G187700_v2.0.a1 Prupe.2G187800_v2.0.a1 Prupe.2G189900_v2.0.a1 Prupe.2G191300_v2.0.a1 Prupe.2G191700_v2.0.a1 Prupe.4G265600_v2.0.a1 Prupe.7G014200_v2.0.a1 Prupe.7G039000_v2.0.a1
pyrus_communis pycom01g05590 pycom01g05910 pycom02g12230 pycom02g25840 pycom03g15580 pycom04g04480 pycom05g09230 pycom05g23350 pycom05g23360 pycom07g08380 pycom09g01980 pycom09g01990 pycom11g18190 pycom11g18200 pycom11g21580 pycom13g04160 pycom15g25800 pycom16g16210 pycom16g17230 pycom16g24560 pycom16g25700 pycom17g11020
rosa_chinensis RchiOBHm_Chr1g0359981 RchiOBHm_Chr2g0151961 RchiOBHm_Chr2g0171331 RchiOBHm_Chr5g0081471 RchiOBHm_Chr6g0283031 RchiOBHm_Chr7g0197111 RchiOBHm_Chr7g0222601
rosa_laevigata RLG00000027843 RLG00000027845 RLG00000030065
rosa_multiflora Rmu_sc0000381.1_g000031 Rmu_sc0001179.1_g000035 Rmu_sc0001616.1_g000046 Rmu_sc0001851.1_g000032 Rmu_sc0002152.1_g000013 Rmu_sc0004031.1_g000015 Rmu_sc0004645.1_g000003 Rmu_sc0007393.1_g000001 Rmu_sc0008949.1_g000003 Rmu_sc0009799.1_g000011 Rmu_sc0011614.1_g000001 Rmu_sc0011699.1_g000009 Rmu_sc0019280.1_g000001 Rmu_sc0023984.1_g000001 Rmu_ssc0000050.1_g000036
rosa_roxburghii Rroxscaffold_1G00022650 Rroxscaffold_1G00033480 Rroxscaffold_3G00270250 Rroxscaffold_4G00296600 Rroxscaffold_4G00296760 Rroxscaffold_6G00409840
rosa_rugosa Rorug01G0273800 Rorug01G0273900 Rorug01G0274000
rosa_samantha Rh1AG287300 Rh1AG288100 Rh1BG253000 Rh1BG253500 Rh1BG399800 Rh1CG270400 Rh1CG271000 Rh1DG282000 Rh1DG282500 Rh4DG126500 Rh5DG194600 Rh5DG461100
rosa_wichuraiana Rw0G009130 Rw1G002590 Rw1G008490 Rw1G012210 Rw1G014290 Rw1G014490 Rw1G025510 Rw2G025840 Rw2G026170 Rw2G036510 Rw3G003050 Rw4G009270 Rw5G002350 Rw5G013930 Rw5G019500 Rw5G025890 Rw5G029960 Rw5G032360 Rw6G009890 Rw6G015670 Rw6G015860 Rw7G010030 Rw7G032600 Rw7G032770

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 2 cut(s) 521, 585
AcuI CTGAAG 2 cut(s) 192, 339
AfiI CCNNNNNNNGG 1 cut(s) 58
AgsI TTSAA 4 cut(s) 362, 371, 430, 550
AjiI CACGTC 1 cut(s) 313
AluBI AGCT 2 cut(s) 180, 308
AluI AGCT 2 cut(s) 180, 308
Alw26I GTCTC 1 cut(s) 26
ApoI RAATTY 2 cut(s) 521, 585
AsuHPI GGTGA 2 cut(s) 146, 518
BanII GRGCYC 1 cut(s) 456
BccI CCATC 1 cut(s) 369
BcgI CGANNNNNNTGC 2 cut(s) 248, 282
BcoDI GTCTC 1 cut(s) 26
BmgBI CACGTC 1 cut(s) 313
BmiI GGNNCC 1 cut(s) 453
BmsI GCATC 2 cut(s) 57, 528
BpuEI CTTGAG 1 cut(s) 288
BsaI GGTCTC 1 cut(s) 26
BsaJI CCNNGG 1 cut(s) 27
Bsc4I CCNNNNNNNGG 1 cut(s) 58
Bse1I ACTGG 1 cut(s) 508
Bse3DI GCAATG 1 cut(s) 342
BseDI CCNNGG 1 cut(s) 27
BseGI GGATG 3 cut(s) 48, 380, 543
BseLI CCNNNNNNNGG 1 cut(s) 58
BseMI GCAATG 1 cut(s) 342
BseNI ACTGG 1 cut(s) 508
BseRI GAGGAG 1 cut(s) 74
BslI CCNNNNNNNGG 1 cut(s) 58
BsmAI GTCTC 1 cut(s) 26
Bso31I GGTCTC 1 cut(s) 26
Bsp1286I GDGCHC 1 cut(s) 456
BspLI GGNNCC 1 cut(s) 453
BspTNI GGTCTC 1 cut(s) 26
BsrDI GCAATG 1 cut(s) 342
BsrI ACTGG 1 cut(s) 508
BssECI CCNNGG 1 cut(s) 27
BssT1I CCWWGG 1 cut(s) 27
Bst4CI ACNGT 1 cut(s) 463
BstF5I GGATG 3 cut(s) 48, 380, 543
BstMAI GTCTC 1 cut(s) 26
BstMWI GCNNNNNNNGC 1 cut(s) 177
BtrI CACGTC 1 cut(s) 313
BtsCI GGATG 3 cut(s) 48, 380, 543
BtsIMutI CAGTG 1 cut(s) 315
CviAII CATG 2 cut(s) 491, 574
CviJI RGCY 5 cut(s) 118, 180, 296, 308, 454
CviKI_1 RGCY 5 cut(s) 118, 180, 296, 308, 454
Eco130I CCWWGG 1 cut(s) 27
Eco24I GRGCYC 1 cut(s) 456
Eco31I GGTCTC 1 cut(s) 26
Eco32I GATATC 1 cut(s) 24
Eco57I CTGAAG 2 cut(s) 192, 339
EcoRV GATATC 1 cut(s) 24
EcoT14I CCWWGG 1 cut(s) 27
EcoT38I GRGCYC 1 cut(s) 456
ErhI CCWWGG 1 cut(s) 27
FaeI CATG 2 cut(s) 494, 577
FalI AAGNNNNNCTT 2 cut(s) 69, 101
FatI CATG 2 cut(s) 490, 573
FauNDI CATATG 1 cut(s) 328
FokI GGATG 3 cut(s) 35, 387, 550
FriOI GRGCYC 1 cut(s) 456
Hin1II CATG 2 cut(s) 494, 577
HinfI GANTC 2 cut(s) 43, 476
HphI GGTGA 2 cut(s) 146, 518
Hpy166II GTNNAC 1 cut(s) 149
Hpy188I TCNGA 3 cut(s) 53, 211, 532
Hpy188III TCNNGA 2 cut(s) 77, 430
Hpy8I GTNNAC 1 cut(s) 149
HpyAV CCTTC 2 cut(s) 216, 365
HpyCH4III ACNGT 1 cut(s) 463
HpyCH4IV ACGT 2 cut(s) 289, 312
HpyCH4V TGCA 3 cut(s) 91, 276, 562
HpyF10VI GCNNNNNNNGC 1 cut(s) 177
HpySE526I ACGT 2 cut(s) 289, 312
Hsp92II CATG 2 cut(s) 494, 577
LmnI GCTCC 1 cut(s) 451
LpnPI CCDG 1 cut(s) 489
LweI GCATC 2 cut(s) 57, 528
MaeII ACGT 2 cut(s) 289, 312
MaeIII GTNAC 2 cut(s) 5, 313
MboII GAAGA 2 cut(s) 136, 332
MhlI GDGCHC 1 cut(s) 456
MluCI AATT 4 cut(s) 271, 277, 521, 585
MlyI GAGTC 1 cut(s) 37
MseI TTAA 1 cut(s) 447
MwoI GCNNNNNNNGC 1 cut(s) 177
NdeI CATATG 1 cut(s) 328
NlaIII CATG 2 cut(s) 494, 577
NlaIV GGNNCC 1 cut(s) 453
NmuCI GTSAC 2 cut(s) 5, 313
PfeI GAWTC 1 cut(s) 476
PleI GAGTC 1 cut(s) 37
PpsI GAGTC 1 cut(s) 37
PspN4I GGNNCC 1 cut(s) 453
PsrI GAACNNNNNNTAC 2 cut(s) 342, 374
SaqAI TTAA 1 cut(s) 447
SchI GAGTC 1 cut(s) 37
SduI GDGCHC 1 cut(s) 456
SetI ASST 9 cut(s) 38, 76, 113, 154, 182, 292, 310, 315, 513
SfaNI GCATC 2 cut(s) 57, 528
SmlI CTYRAG 1 cut(s) 303
SmoI CTYRAG 1 cut(s) 303
Sse9I AATT 4 cut(s) 271, 277, 521, 585
StyI CCWWGG 1 cut(s) 27
TaaI ACNGT 1 cut(s) 463
TaiI ACGT 2 cut(s) 292, 315
TaqI TCGA 2 cut(s) 268, 283
TasI AATT 4 cut(s) 271, 277, 521, 585
TfiI GAWTC 1 cut(s) 476
Tru1I TTAA 1 cut(s) 447
Tru9I TTAA 1 cut(s) 447
TscAI CASTG 1 cut(s) 322
TseFI GTSAC 2 cut(s) 5, 313
Tsp45I GTSAC 2 cut(s) 5, 313
TspDTI ATGAA 1 cut(s) 149
TspRI CASTG 1 cut(s) 322
XapI RAATTY 2 cut(s) 521, 585
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.