Rroxscaffold_1G00062680

Required for 40S ribosome biogenesis. Involved in nucleolar processing of pre-18S ribosomal RNA and ribosome assembly

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000145
Physical Location & Seq
Forward (+)
84728186 .. 84730808
2623 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00062680.1

Sequence Viewer

Length: 561 bp
ATGGAGAACAGCAACCCAAAAGCGGACCAGATCGAGGTGGAAGTGTCTGAGTTCGAGAATGATTTTGATGTCGTTGAGGGTAAAATGAAAGTTGCAAGAGCCACAAGAGATCAAGACCCAAATATTATTCTCAGGGCTATGGATGTTTTGGAGCTTTTGTCAAGAAGTGTTCCGGCAGAATGGGCAATACGAGTACTGGATTGCAGTTTCCAGTACGACATCATCAAGATTGGGAATCAAGAAGAGGGGATTTGCAATATGTATGGGATCACTGAGGAGCAATTTCTTGCACGGAGGAAGCTTCTGGCTGGCTATGTCCTAAAGGTACTGTATGAACTGACAGATTGTGGAATTTTTCTCAAGGGTAACACCATTGCTGTGATTGGTGGTTCACTCCAAGGAATAAATATAGTAAGGAGGATTGTGGAAGACTGCATTGCTCATGGTGTGCCTCCTCTACCCCGGGTGCGATTGATGAAAAAGAAGACTGAACAGAAGAAGGATGGGATCATCAAAGTGACGAGTGAACTGATGATGAATCTCCAGGCTATGCGGGTCTGA
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
No domains found.

Protein Analysis

186

Amino Acids

21.03

Weight (kDa)

5.61

Isoelectric Point (pI)

38.61

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KH_KRR1_1st PF17903 15 - 67 2.9e-09 Krr1 KH1 domain
KH_KRR1_2nd PF21800 72 - 162 1e-11 KRR1 small subunit processome component, second KH domain
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: OG0000145)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G08420
fragaria_vesca FvH4_1g11160 FvH4_2g08143 FvH4_3g36450 FvH4_3g36450 FvH4_3g36450 FvH4_3g36450 FvH4_3g36460 FvH4_3g36460 FvH4_3g45301 FvH4_4g27690 FvH4_4g27690 FvH4_4g27690 FvH4_4g27690 FvH4_5g09160 FvH4_5g09161 FvH4_5g09380 FvH4_5g22900 FvH4_6g42520 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550 FvH4_6g42550
malus_domestica MD02G1015700.v1.1 MD02G1058900.v1.1 MD02G1059000.v1.1 MD03G1170900.v1.1 MD04G1231500.v1.1 MD13G1044300.v1.1 MD16G1045100.v1.1
prunus_persica Prupe.1G308200_v2.0.a1 Prupe.2G125300_v2.0.a1 Prupe.6G307800_v2.0.a1 Prupe.6G351700_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1 Prupe.6G351800_v2.0.a1
pyrus_communis pycom02g01420 pycom02g04810 pycom03g12790 pycom03g12800 pycom12g17840 pycom12g17850 pycom12g17860 pycom13g03890 pycom16g03970
rosa_chinensis RchiOBHm_Chr2g0090081 RchiOBHm_Chr3g0469061 RchiOBHm_Chr3g0469081 RchiOBHm_Chr4g0435531 RchiOBHm_Chr5g0014021 RchiOBHm_Chr5g0014031 RchiOBHm_Chr5g0014041 RchiOBHm_Chr7g0190151 RchiOBHm_Chr7g0190161 RchiOBHm_Chr7g0190171 RchiOBHm_Chr7g0210441
rosa_laevigata RLG00000003683 RLG00000003687 RLG00000003688 RLG00000004561 RLG00000004643 RLG00000016083 RLG00000021085 RLG00000024381 RLG00000032065 RLG00000032067 RLG00000032071 RLG00000032072 RLG00000032075
rosa_multiflora Rmu_co8284349.1_g000001 Rmu_co8324735.1_g000001 Rmu_co8355915.1_g000001 Rmu_co8388905.1_g000001 Rmu_sc0000302.1_g000041 Rmu_sc0000302.1_g000050 Rmu_sc0001940.1_g000034 Rmu_sc0003807.1_g000011 Rmu_sc0005803.1_g000001 Rmu_sc0005803.1_g000007 Rmu_sc0007139.1_g000007 Rmu_sc0007767.1_g000001 Rmu_sc0007767.1_g000003 Rmu_sc0007767.1_g000006 Rmu_sc0007933.1_g000005 Rmu_sc0008587.1_g000004 Rmu_sc0008968.1_g000004 Rmu_sc0018491.1_g000002 Rmu_sc0022420.1_g000001 Rmu_sc0027700.1_g000001 Rmu_sc0036218.1_g000001
rosa_roxburghii Rroxscaffold_1G00062590 Rroxscaffold_1G00062600 Rroxscaffold_1G00062620 Rroxscaffold_1G00062630 Rroxscaffold_1G00062640 Rroxscaffold_1G00062670 Rroxscaffold_1G00062680 Rroxscaffold_2G00091430 Rroxscaffold_2G00151410 Rroxscaffold_3G00245340 Rroxscaffold_3G00255390 Rroxscaffold_3G00264820 Rroxscaffold_3G00264830 Rroxscaffold_3G00265870 Rroxscaffold_5G00355140 Rroxscaffold_5G00376760 Rroxscaffold_6G00412230
rosa_rugosa Rorug02G0005200 Rorug02G0468300 Rorug02G0468300 Rorug02G0532400 Rorug03G0098900 Rorug03G0099000 Rorug03G0099400 Rorug04G0286000 Rorug05G0014400 Rorug05G0014500 Rorug05G0014600 Rorug05G0014600 Rorug05G0014600 Rorug05G0014800 Rorug05G0014900 Rorug05G0015000 Rorug05G0015100 Rorug05G0015100 Rorug05G0441300 Rorug06G0495300 Rorug06G0502600 Rorug06G0502700 Rorug07G0062300
rosa_samantha Rh2AG050900 Rh2BG049600 Rh2CG051800 Rh2CG234600 Rh2DG051100 Rh3BG171300 Rh3BG171800 Rh3CG336700 Rh3DG203600 Rh3DG203800 Rh4AG341600 Rh4AG341700 Rh4BG349900 Rh4CG364600 Rh4DG344200 Rh5AG108800 Rh5AG108900 Rh5AG109000 Rh5AG109100 Rh5BG105500 Rh5CG117300 Rh5CG117500 Rh5CG117600 Rh5DG104200 Rh5DG104400 Rh5DG104500 Rh5DG104600 Rh7BG102300 Rh7BG110600 Rh7BG110700 Rh7BG118900 Rh7CG103600 Rh7CG112800 Rh7CG113000 Rh7CG200300 Rh7CG271100 Rh7DG111300 Rh7DG111400 Rh7DG194400 Rh7DG261800 Rh7DG261900
rosa_wichuraiana Rw0G014550 Rw0G014580 Rw2G004580 Rw3G013980 Rw3G013990 Rw3G014000 Rw3G014020 Rw4G029810 Rw5G009500 Rw5G009510 Rw5G009520 Rw5G009530 Rw7G008640 Rw7G009350 Rw7G021680

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 23, 553
AclWI GGATC 2 cut(s) 275, 515
AcsI RAATTY 1 cut(s) 351
AfaI GTAC 3 cut(s) 195, 215, 327
AfiI CCNNNNNNNGG 2 cut(s) 22, 34
AjnI CCWGG 1 cut(s) 543
AluBI AGCT 2 cut(s) 154, 301
AluI AGCT 2 cut(s) 154, 301
AlwI GGATC 2 cut(s) 275, 515
Ama87I CYCGRG 1 cut(s) 462
ApoI RAATTY 1 cut(s) 351
AspS9I GGNCC 1 cut(s) 25
AsuC2I CCSGG 2 cut(s) 463, 464
AvaI CYCGRG 1 cut(s) 462
AvaII GGWCC 1 cut(s) 25
BbsI GAAGAC 2 cut(s) 435, 491
BccI CCATC 1 cut(s) 497
BciT130I CCWGG 1 cut(s) 545
BcnI CCSGG 2 cut(s) 463, 464
BmcAI AGTACT 1 cut(s) 195
Bme1390I CCNGG 3 cut(s) 463, 464, 545
Bme18I GGWCC 1 cut(s) 25
BmeT110I CYCGRG 1 cut(s) 462
BmgT120I GGNCC 1 cut(s) 25
BmrFI CCNGG 3 cut(s) 463, 464, 545
BpiI GAAGAC 2 cut(s) 435, 491
BpmI CTGGAG 1 cut(s) 527
BpuEI CTTGAG 1 cut(s) 344
BpuMI CCSGG 2 cut(s) 463, 464
BsaJI CCNNGG 3 cut(s) 397, 461, 462
BsaXI ACNNNNNCTCC 2 cut(s) 143, 173
Bsc4I CCNNNNNNNGG 2 cut(s) 22, 34
Bse1I ACTGG 2 cut(s) 201, 211
Bse3DI GCAATG 2 cut(s) 372, 435
BseBI CCWGG 1 cut(s) 545
BseDI CCNNGG 3 cut(s) 397, 461, 462
BseGI GGATG 2 cut(s) 148, 508
BseLI CCNNNNNNNGG 2 cut(s) 22, 34
BseMI GCAATG 2 cut(s) 372, 435
BseMII CTCAG 3 cut(s) 39, 145, 264
BseNI ACTGG 2 cut(s) 201, 211
BseRI GAGGAG 2 cut(s) 290, 444
BsiHKCI CYCGRG 1 cut(s) 462
BsiSI CCGG 2 cut(s) 173, 463
BslI CCNNNNNNNGG 2 cut(s) 22, 34
BsoBI CYCGRG 1 cut(s) 462
Bsp143I GATC 4 cut(s) 30, 109, 267, 507
BspACI CCGC 2 cut(s) 23, 553
BspCNI CTCAG 3 cut(s) 40, 144, 265
BspPI GGATC 2 cut(s) 275, 515
BsrDI GCAATG 2 cut(s) 372, 435
BsrI ACTGG 2 cut(s) 201, 211
BssECI CCNNGG 3 cut(s) 397, 461, 462
BssMI GATC 4 cut(s) 30, 109, 267, 507
BssT1I CCWWGG 1 cut(s) 397
Bst2UI CCWGG 1 cut(s) 545
Bst4CI ACNGT 1 cut(s) 330
Bst6I CTCTTC 1 cut(s) 237
BstC8I GCNNGC 1 cut(s) 310
BstDEI CTNAG 3 cut(s) 48, 131, 273
BstF5I GGATG 2 cut(s) 148, 508
BstKTI GATC 4 cut(s) 33, 112, 270, 510
BstMBI GATC 4 cut(s) 30, 109, 267, 507
BstMWI GCNNNNNNNGC 1 cut(s) 182
BstNI CCWGG 1 cut(s) 545
BstSCI CCNGG 3 cut(s) 461, 462, 543
BstV2I GAAGAC 2 cut(s) 435, 491
BtsCI GGATG 2 cut(s) 148, 508
BtsIMutI CAGTG 1 cut(s) 270
Cac8I GCNNGC 1 cut(s) 310
Cfr13I GGNCC 1 cut(s) 25
Cfr9I CCCGGG 1 cut(s) 462
Csp6I GTAC 3 cut(s) 194, 214, 326
CviAII CATG 1 cut(s) 443
CviJI RGCY 7 cut(s) 101, 137, 154, 301, 308, 312, 548
CviKI_1 RGCY 7 cut(s) 101, 137, 154, 301, 308, 312, 548
CviQI GTAC 3 cut(s) 194, 214, 326
DdeI CTNAG 3 cut(s) 48, 131, 273
DpnI GATC 4 cut(s) 32, 111, 269, 509
DpnII GATC 4 cut(s) 30, 109, 267, 507
Eam1104I CTCTTC 1 cut(s) 237
EarI CTCTTC 1 cut(s) 237
Eco130I CCWWGG 1 cut(s) 397
Eco47I GGWCC 1 cut(s) 25
Eco88I CYCGRG 1 cut(s) 462
EcoRII CCWGG 1 cut(s) 543
EcoT14I CCWWGG 1 cut(s) 397
ErhI CCWWGG 1 cut(s) 397
FaeI CATG 1 cut(s) 446
FaiI YATR 8 cut(s) 140, 260, 264, 315, 333, 410, 444, 551
FatI CATG 1 cut(s) 442
FauI CCCGC 1 cut(s) 546
FokI GGATG 2 cut(s) 155, 515
GsuI CTGGAG 1 cut(s) 527
HapII CCGG 2 cut(s) 173, 463
Hin1II CATG 1 cut(s) 446
HindIII AAGCTT 1 cut(s) 299
HinfI GANTC 2 cut(s) 235, 538
HpaII CCGG 2 cut(s) 173, 463
Hpy166II GTNNAC 2 cut(s) 392, 527
Hpy188I TCNGA 2 cut(s) 49, 560
Hpy188III TCNNGA 5 cut(s) 55, 113, 162, 226, 239
Hpy8I GTNNAC 2 cut(s) 392, 527
HpyAV CCTTC 1 cut(s) 493
HpyCH4III ACNGT 1 cut(s) 330
HpyCH4V TGCA 5 cut(s) 95, 204, 255, 290, 435
HpyF10VI GCNNNNNNNGC 1 cut(s) 182
HpyF3I CTNAG 3 cut(s) 48, 131, 273
Hsp92II CATG 1 cut(s) 446
Kzo9I GATC 4 cut(s) 30, 109, 267, 507
LmnI GCTCC 2 cut(s) 151, 277
MaeIII GTNAC 2 cut(s) 365, 517
MalI GATC 4 cut(s) 32, 111, 269, 509
MboI GATC 4 cut(s) 30, 109, 267, 507
MboII GAAGA 4 cut(s) 254, 440, 496, 508
MluCI AATT 2 cut(s) 281, 351
MnlI CCTC 8 cut(s) 28, 70, 238, 268, 288, 411, 462, 465
MslI CAYNNNNRTG 2 cut(s) 377, 515
MspI CCGG 2 cut(s) 173, 463
MspR9I CCNGG 3 cut(s) 463, 464, 545
MvaI CCWGG 1 cut(s) 545
MwoI GCNNNNNNNGC 1 cut(s) 182
NciI CCSGG 2 cut(s) 463, 464
NdeII GATC 4 cut(s) 30, 109, 267, 507
NlaIII CATG 1 cut(s) 446
NmuCI GTSAC 1 cut(s) 517
PfeI GAWTC 2 cut(s) 235, 538
Psp6I CCWGG 1 cut(s) 543
PspGI CCWGG 1 cut(s) 543
PspPI GGNCC 1 cut(s) 25
RsaI GTAC 3 cut(s) 195, 215, 327
RsaNI GTAC 3 cut(s) 194, 214, 326
RseI CAYNNNNRTG 2 cut(s) 377, 515
Sau3AI GATC 4 cut(s) 30, 109, 267, 507
Sau96I GGNCC 1 cut(s) 25
ScaI AGTACT 1 cut(s) 195
ScrFI CCNGG 3 cut(s) 463, 464, 545
SetI ASST 4 cut(s) 39, 156, 303, 327
SinI GGWCC 1 cut(s) 25
SmaI CCCGGG 1 cut(s) 464
SmiMI CAYNNNNRTG 2 cut(s) 377, 515
SmlI CTYRAG 1 cut(s) 359
SmoI CTYRAG 1 cut(s) 359
Sse9I AATT 2 cut(s) 281, 351
SsiI CCGC 2 cut(s) 23, 553
SspI AATATT 1 cut(s) 124
StyD4I CCNGG 3 cut(s) 461, 462, 543
StyI CCWWGG 1 cut(s) 397
TaaI ACNGT 1 cut(s) 330
TaqI TCGA 2 cut(s) 33, 54
TasI AATT 2 cut(s) 281, 351
TatI WGTACW 1 cut(s) 193
TfiI GAWTC 2 cut(s) 235, 538
TscAI CASTG 1 cut(s) 277
TseFI GTSAC 1 cut(s) 517
Tsp45I GTSAC 1 cut(s) 517
TspDTI ATGAA 4 cut(s) 101, 348, 491, 551
TspGWI ACGGA 1 cut(s) 307
TspMI CCCGGG 1 cut(s) 462
TspRI CASTG 1 cut(s) 277
VpaK11BI GGWCC 1 cut(s) 25
XapI RAATTY 1 cut(s) 351
XmaI CCCGGG 1 cut(s) 462
ZrmI AGTACT 1 cut(s) 195
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.