Rroxscaffold_5G00341940

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000488
Physical Location & Seq
Reverse (-)
10638200 .. 10639162
963 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00341940.1

Sequence Viewer

Length: 570 bp
ATGGCTCTCGGGGTATCGAATTCGAGACTCACAAGGACGAAGGATCCGTTTATGCAAGAAGACCTGCTTCCGAAACCGTACGCAAGTTTTGGGCGATGGGTAGATGCCTCGAAAGAAAGAGTGGATAACCGGAATTGTGCTTCCCGAGGAAGTAGTAGTCTCTATTCTGCCGGAGACGGAACCGTTAGGGTTTGGGACTGCAATGCGGTGAATGCGGCGGGGGTAATCAATCTTGGTGCGGAAGCTGGATGCTTGATTAGTAAGGGTGTGTGGATTTTCTGCGGTGCTTCCAATCTCGTCAAGGCGTGGAATATTGAGTCCAATGCTGAATTTACCTTAGCTGGACCTGTTGGTCAAATCCATGCCATGGAAATTGGGAATGATATGGGTTGGAAATATCGGACTCTACTCGGGTTCTATGGACCATACAATAAGGGTGTGGAATCGGACACTTTGGAGTGTGCTATGACTCTAAATGGACATTCGATCTGTGACGTCTCTTATTTGTTGGACCACATTTCTGATCTCATGCTCATTAGACCACACGATAAAGGTGTGGACTATGTGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 ko04120 map03040 map04120
Pfam Domains
Protein Families
WD40 zf-CCCH

Protein Analysis

189

Amino Acids

20.6

Weight (kDa)

5.52

Isoelectric Point (pI)

33.54

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

Orthologous Genes (Group: OG0000488)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25440 AT4G25440 AT4G25440 AT5G51980 AT5G51980
fragaria_vesca FvH4_2g11580 FvH4_3g29280 FvH4_4g05980 FvH4_7g28880 FvH4_7g28880
malus_domestica MD01G1195600.v1.1 MD02G1195200.v1.1 MD07G1262400.v1.1
prunus_persica Prupe.2G102200_v2.0.a1 Prupe.2G102200_v2.0.a1 Prupe.2G120800_v2.0.a1 Prupe.2G120800_v2.0.a1 Prupe.2G153300_v2.0.a1 Prupe.2G153300_v2.0.a1 Prupe.2G153400_v2.0.a1 Prupe.2G153400_v2.0.a1 Prupe.2G288900_v2.0.a1
pyrus_communis pycom01g20620 pycom02g15900 pycom07g24140
rosa_chinensis RchiOBHm_Chr1g0376561 RchiOBHm_Chr3g0483051 RchiOBHm_Chr3g0483061 RchiOBHm_Chr3g0483601 RchiOBHm_Chr3g0483611 RchiOBHm_Chr4g0402321 RchiOBHm_Chr6g0270771
rosa_laevigata RLG00000009464 RLG00000009486 RLG00000013770 RLG00000023264 RLG00000023325 RLG00000026601 RLG00000035049
rosa_multiflora Rmu_co8110388.1_g000001 Rmu_co8419409.1_g000001 Rmu_sc0000555.1_g000012 Rmu_sc0000642.1_g000020 Rmu_sc0001308.1_g000010 Rmu_sc0002963.1_g000021 Rmu_sc0004788.1_g000012 Rmu_sc0005594.1_g000015 Rmu_sc0022770.1_g000001
rosa_roxburghii Rroxscaffold_4G00282000 Rroxscaffold_5G00341940 Rroxscaffold_5G00341950 Rroxscaffold_6G00398950 Rroxscaffold_7G00197610
rosa_rugosa Rorug01G0396500 Rorug03G0207400 Rorug03G0346000 Rorug04G0166800 Rorug06G0056400 Rorug06G0056500
rosa_samantha Rh1AG412700 Rh1BG372400 Rh1BG372600 Rh1CG386200 Rh1CG386500 Rh1DG403300 Rh1DG403500 Rh3AG255500 Rh3AG255600 Rh3BG292600 Rh3CG290200 Rh3DG278800 Rh3DG286100 Rh4AG075500 Rh4AG111600 Rh4BG071900 Rh4BG072100 Rh4BG231300 Rh4CG080200 Rh4CG080300 Rh4DG069300 Rh4DG069500 Rh6AG175700 Rh6BG178900 Rh6CG175200 Rh6DG167500
rosa_wichuraiana Rw1G036190 Rw3G023110 Rw4G006070 Rw6G014960

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 351
AatII GACGTC 1 cut(s) 498
Acc36I ACCTGC 1 cut(s) 72
AccB7I CCANNNNNTGG 1 cut(s) 367
AciI CCGC 5 cut(s) 206, 215, 218, 239, 282
AclWI GGATC 2 cut(s) 38, 51
AcsI RAATTY 2 cut(s) 19, 329
AcyI GRCGYC 1 cut(s) 495
AfaI GTAC 1 cut(s) 80
AfiI CCNNNNNNNGG 1 cut(s) 367
AluBI AGCT 2 cut(s) 245, 341
AluI AGCT 2 cut(s) 245, 341
Alw26I GTCTC 4 cut(s) 19, 164, 168, 502
AlwI GGATC 2 cut(s) 38, 51
Ama87I CYCGRG 3 cut(s) 8, 144, 410
ApoI RAATTY 2 cut(s) 19, 329
AspS9I GGNCC 3 cut(s) 344, 422, 511
AsuHPI GGTGA 1 cut(s) 220
AvaI CYCGRG 3 cut(s) 8, 144, 410
AvaII GGWCC 3 cut(s) 344, 422, 511
BamHI GGATCC 1 cut(s) 43
BbsI GAAGAC 1 cut(s) 66
BccI CCATC 1 cut(s) 90
BcoDI GTCTC 4 cut(s) 19, 164, 168, 502
BfuAI ACCTGC 1 cut(s) 72
BisI GCNGC 1 cut(s) 216
BlsI GCNGC 1 cut(s) 217
Bme18I GGWCC 3 cut(s) 344, 422, 511
BmeT110I CYCGRG 3 cut(s) 8, 144, 410
BmgT120I GGNCC 3 cut(s) 344, 422, 511
BmiI GGNNCC 2 cut(s) 45, 181
BmsI GCATC 2 cut(s) 94, 239
BpiI GAAGAC 1 cut(s) 66
Bpu10I CCTNAGC 1 cut(s) 337
BsaHI GRCGYC 1 cut(s) 495
BsaJI CCNNGG 2 cut(s) 145, 366
BsaWI WCCGGW 1 cut(s) 129
Bsc4I CCNNNNNNNGG 1 cut(s) 367
Bse3DI GCAATG 1 cut(s) 208
BseDI CCNNGG 2 cut(s) 145, 366
BseGI GGATG 1 cut(s) 254
BseLI CCNNNNNNNGG 1 cut(s) 367
BseMI GCAATG 1 cut(s) 208
BsiHKCI CYCGRG 3 cut(s) 8, 144, 410
BsiSI CCGG 2 cut(s) 130, 171
BsiWI CGTACG 1 cut(s) 78
BslFI GGGAC 1 cut(s) 209
BslI CCNNNNNNNGG 1 cut(s) 367
BsmAI GTCTC 4 cut(s) 19, 164, 168, 502
BsmBI CGTCTC 2 cut(s) 168, 502
BsmFI GGGAC 1 cut(s) 209
BsmI GAATGC 1 cut(s) 217
BsoBI CYCGRG 3 cut(s) 8, 144, 410
Bsp143I GATC 3 cut(s) 43, 486, 523
Bsp19I CCATGG 1 cut(s) 366
BspACI CCGC 5 cut(s) 206, 215, 218, 239, 282
BspLI GGNNCC 2 cut(s) 45, 181
BspMI ACCTGC 1 cut(s) 72
BspPI GGATC 2 cut(s) 38, 51
BsrDI GCAATG 1 cut(s) 208
BssECI CCNNGG 2 cut(s) 145, 366
BssMI GATC 3 cut(s) 43, 486, 523
BssNI GRCGYC 1 cut(s) 495
BssT1I CCWWGG 1 cut(s) 366
Bst4CI ACNGT 2 cut(s) 78, 184
BstACI GRCGYC 1 cut(s) 495
BstDEI CTNAG 1 cut(s) 337
BstDSI CCRYGG 1 cut(s) 366
BstF5I GGATG 1 cut(s) 254
BstKTI GATC 3 cut(s) 46, 489, 526
BstMAI GTCTC 4 cut(s) 19, 164, 168, 502
BstMBI GATC 3 cut(s) 43, 486, 523
BstMWI GCNNNNNNNGC 1 cut(s) 212
BstV2I GAAGAC 1 cut(s) 66
BstX2I RGATCY 1 cut(s) 43
BstYI RGATCY 1 cut(s) 43
BtgI CCRYGG 1 cut(s) 366
BtgZI GCGATG 1 cut(s) 109
BtsCI GGATG 1 cut(s) 254
BveI ACCTGC 1 cut(s) 72
Cfr13I GGNCC 3 cut(s) 344, 422, 511
Csp6I GTAC 1 cut(s) 79
CviAII CATG 3 cut(s) 362, 367, 529
CviJI RGCY 3 cut(s) 5, 245, 341
CviKI_1 RGCY 3 cut(s) 5, 245, 341
CviQI GTAC 1 cut(s) 79
DdeI CTNAG 1 cut(s) 337
DpnI GATC 3 cut(s) 45, 488, 525
DpnII GATC 3 cut(s) 43, 486, 523
DrdI GACNNNNNNGTC 1 cut(s) 351
DseDI GACNNNNNNGTC 1 cut(s) 351
Eco130I CCWWGG 1 cut(s) 366
Eco47I GGWCC 3 cut(s) 344, 422, 511
Eco88I CYCGRG 3 cut(s) 8, 144, 410
EcoRI GAATTC 1 cut(s) 19
EcoT14I CCWWGG 1 cut(s) 366
ErhI CCWWGG 1 cut(s) 366
Esp3I CGTCTC 2 cut(s) 168, 502
FaeI CATG 3 cut(s) 365, 370, 532
FaiI YATR 9 cut(s) 53, 363, 368, 386, 420, 427, 467, 530, 564
FalI AAGNNNNNCTT 2 cut(s) 51, 83
FaqI GGGAC 1 cut(s) 209
FatI CATG 3 cut(s) 361, 366, 528
FauI CCCGC 1 cut(s) 211
Fnu4HI GCNGC 1 cut(s) 216
FokI GGATG 1 cut(s) 261
Fsp4HI GCNGC 1 cut(s) 216
GluI GCNGC 1 cut(s) 216
HapII CCGG 2 cut(s) 130, 171
Hin1I GRCGYC 1 cut(s) 495
Hin1II CATG 3 cut(s) 365, 370, 532
HinfI GANTC 5 cut(s) 27, 317, 403, 443, 469
HpaII CCGG 2 cut(s) 130, 171
HphI GGTGA 1 cut(s) 220
Hpy166II GTNNAC 1 cut(s) 559
Hpy188I TCNGA 4 cut(s) 72, 402, 448, 523
Hpy188III TCNNGA 2 cut(s) 24, 144
Hpy8I GTNNAC 1 cut(s) 559
HpyAV CCTTC 1 cut(s) 34
HpyCH4III ACNGT 2 cut(s) 78, 184
HpyCH4IV ACGT 1 cut(s) 495
HpyCH4V TGCA 2 cut(s) 55, 201
HpyF10VI GCNNNNNNNGC 1 cut(s) 212
HpyF3I CTNAG 1 cut(s) 337
HpySE526I ACGT 1 cut(s) 495
Hsp92I GRCGYC 1 cut(s) 495
Hsp92II CATG 3 cut(s) 365, 370, 532
Kzo9I GATC 3 cut(s) 43, 486, 523
LpnPI CCDG 6 cut(s) 77, 143, 184, 231, 327, 360
LweI GCATC 2 cut(s) 94, 239
MaeII ACGT 1 cut(s) 495
MaeIII GTNAC 1 cut(s) 491
MalI GATC 3 cut(s) 45, 488, 525
MboI GATC 3 cut(s) 43, 486, 523
MboII GAAGA 1 cut(s) 71
MflI RGATCY 1 cut(s) 43
MluCI AATT 4 cut(s) 19, 133, 329, 372
MlyI GAGTC 4 cut(s) 21, 326, 397, 463
MmeI TCCRAC 2 cut(s) 371, 489
MnlI CCTC 2 cut(s) 118, 140
MspI CCGG 2 cut(s) 130, 171
Mva1269I GAATGC 1 cut(s) 217
MwoI GCNNNNNNNGC 1 cut(s) 212
NcoI CCATGG 1 cut(s) 366
NdeII GATC 3 cut(s) 43, 486, 523
NlaIII CATG 3 cut(s) 365, 370, 532
NlaIV GGNNCC 2 cut(s) 45, 181
NmuCI GTSAC 1 cut(s) 491
PcsI WCGNNNNNNNCGW 1 cut(s) 44
PctI GAATGC 1 cut(s) 217
PfeI GAWTC 1 cut(s) 443
Pfl23II CGTACG 1 cut(s) 78
PflMI CCANNNNNTGG 1 cut(s) 367
PkrI GCNGC 1 cut(s) 217
PleI GAGTC 4 cut(s) 21, 325, 397, 463
PpsI GAGTC 4 cut(s) 21, 325, 397, 463
PspLI CGTACG 1 cut(s) 78
PspN4I GGNNCC 2 cut(s) 45, 181
PspPI GGNCC 3 cut(s) 344, 422, 511
PsuI RGATCY 1 cut(s) 43
RsaI GTAC 1 cut(s) 80
RsaNI GTAC 1 cut(s) 79
SatI GCNGC 1 cut(s) 216
Sau3AI GATC 3 cut(s) 43, 486, 523
Sau96I GGNCC 3 cut(s) 344, 422, 511
SchI GAGTC 4 cut(s) 21, 326, 397, 463
SetI ASST 7 cut(s) 66, 247, 338, 343, 349, 498, 556
SfaNI GCATC 2 cut(s) 94, 239
SinI GGWCC 3 cut(s) 344, 422, 511
Sse9I AATT 4 cut(s) 19, 133, 329, 372
SsiI CCGC 5 cut(s) 206, 215, 218, 239, 282
SspI AATATT 1 cut(s) 313
StyI CCWWGG 1 cut(s) 366
TaaI ACNGT 2 cut(s) 78, 184
TaiI ACGT 1 cut(s) 498
TaqI TCGA 4 cut(s) 17, 23, 110, 485
TasI AATT 4 cut(s) 19, 133, 329, 372
TauI GCSGC 1 cut(s) 218
TfiI GAWTC 1 cut(s) 443
TseFI GTSAC 1 cut(s) 491
Tsp45I GTSAC 1 cut(s) 491
TspGWI ACGGA 2 cut(s) 36, 192
Van91I CCANNNNNTGG 1 cut(s) 367
VpaK11BI GGWCC 3 cut(s) 344, 422, 511
XapI RAATTY 2 cut(s) 19, 329
ZraI GACGTC 1 cut(s) 496
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.