Rroxscaffold_6G00412230

rRNA processing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0000145
Physical Location & Seq
Reverse (-)
34857445 .. 34859928
2484 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00412230.1

Sequence Viewer

Length: 651 bp
ATGGAGATCTGCGCCGGTCACAAATCGAAGATGCCGTGCCCAAACTCCGACCACATGGAGTCGGAAAAGTCTGAAGTGACCTCCTTCACCGAGTCATTCTCCAAATACCACATACCAAAGTTGAAAGATGCTTGGCCGGAGGTGGAATCGGCTTTACAAGAGCATGGAATTTCTTACACACTCAATCTGGCTGAGCTTTACATGACTGTCTCAACCACCCCAAGGACCAAAGATCCAGACATCATTCACAGGGCTAGGGAGATTATTGTGCTTCTGTCCAAAACTACTGTTCCGACATATGTGGTAATTAAAATATTGAATGGCGATATGCATCATGACCACATCAAAACTGGGTATCAAGAAGGTGGGCTTGCTGCAATACATGGGATCAAGAAGGAGCGATTTGATAAACGGAGGATCAGATTCTTTGAAAACGTAAAGGACCTTGCATGCCTGATGAGTTGTCATCTGTATGTTAACGGAAACACTGTGACTGCTGCAGGAACTTCACTTGGGCATGTAAAGGTGGTCAGAATGGTCGTTGAAAGGTGTAATGTTGAAAATGTGAATCCTGCAACTATTGTCAGTCGCTTAAAAATGAGGAAAGATATGCTTAATGTGGAGAGAAGGCTTCAAGCTTTGTTGATGTGA
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

216

Amino Acids

24.53

Weight (kDa)

8.92

Isoelectric Point (pI)

46.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KH_KRR1_1st PF17903 28 - 99 1.6e-13 Krr1 KH1 domain
KH_KRR1_2nd PF21800 131 - 204 3e-08 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
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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)
AclWI GGATC 3 cut(s) 227, 395, 425
AcoI YGGCCR 1 cut(s) 134
AcsI RAATTY 1 cut(s) 168
AcuI CTGAAG 1 cut(s) 93
AfiI CCNNNNNNNGG 1 cut(s) 222
AgsI TTSAA 6 cut(s) 124, 319, 431, 545, 560, 635
AluBI AGCT 2 cut(s) 196, 638
AluI AGCT 2 cut(s) 196, 638
Alw26I GTCTC 1 cut(s) 214
AlwI GGATC 3 cut(s) 227, 395, 425
AoxI GGCC 1 cut(s) 134
ApeKI GCWGC 2 cut(s) 374, 497
ApoI RAATTY 1 cut(s) 168
AspLEI GCGC 1 cut(s) 14
AspS9I GGNCC 2 cut(s) 225, 442
AsuHPI GGTGA 1 cut(s) 79
AvaII GGWCC 2 cut(s) 225, 442
BaeGI GKGCMC 1 cut(s) 41
BbvI GCAGC 2 cut(s) 361, 484
BceAI ACGGC 1 cut(s) 19
BcoDI GTCTC 1 cut(s) 214
BfaI CTAG 1 cut(s) 255
BfmI CTRYAG 1 cut(s) 498
BglII AGATCT 1 cut(s) 6
BisI GCNGC 2 cut(s) 375, 498
BlpI GCTNAGC 1 cut(s) 192
BlsI GCNGC 2 cut(s) 376, 499
Bme18I GGWCC 2 cut(s) 225, 442
BmgT120I GGNCC 2 cut(s) 225, 442
BmrI ACTGGG 1 cut(s) 360
BmsI GCATC 3 cut(s) 21, 118, 340
BmuI ACTGGG 1 cut(s) 360
BplI GAGNNNNNCTC 2 cut(s) 83, 115
Bpu1102I GCTNAGC 1 cut(s) 192
BsaBI GATNNNNATC 1 cut(s) 330
BsaJI CCNNGG 1 cut(s) 221
Bsc4I CCNNNNNNNGG 1 cut(s) 222
Bse118I RCCGGY 1 cut(s) 14
Bse1I ACTGG 1 cut(s) 355
Bse8I GATNNNNATC 1 cut(s) 330
BseDI CCNNGG 1 cut(s) 221
BseJI GATNNNNATC 1 cut(s) 330
BseLI CCNNNNNNNGG 1 cut(s) 222
BseMII CTCAG 1 cut(s) 183
BseNI ACTGG 1 cut(s) 355
BseSI GKGCMC 1 cut(s) 41
BseXI GCAGC 2 cut(s) 361, 484
BshFI GGCC 1 cut(s) 136
BsiSI CCGG 2 cut(s) 15, 137
BslI CCNNNNNNNGG 1 cut(s) 222
BsmAI GTCTC 1 cut(s) 214
BsnI GGCC 1 cut(s) 136
Bsp1286I GDGCHC 1 cut(s) 41
Bsp143I GATC 4 cut(s) 6, 232, 387, 417
Bsp1720I GCTNAGC 1 cut(s) 192
BspANI GGCC 1 cut(s) 136
BspCNI CTCAG 1 cut(s) 184
BspHI TCATGA 1 cut(s) 334
BspMAI CTGCAG 1 cut(s) 502
BspPI GGATC 3 cut(s) 227, 395, 425
BsrFI RCCGGY 1 cut(s) 14
BsrI ACTGG 1 cut(s) 355
BssAI RCCGGY 1 cut(s) 14
BssECI CCNNGG 1 cut(s) 221
BssMI GATC 4 cut(s) 6, 232, 387, 417
BssT1I CCWWGG 1 cut(s) 221
Bst4CI ACNGT 3 cut(s) 208, 289, 490
BstC8I GCNNGC 2 cut(s) 372, 451
BstDEI CTNAG 1 cut(s) 192
BstHHI GCGC 1 cut(s) 14
BstKTI GATC 4 cut(s) 9, 235, 390, 420
BstMAI GTCTC 1 cut(s) 214
BstMBI GATC 4 cut(s) 6, 232, 387, 417
BstNSI RCATGY 2 cut(s) 453, 521
BstSFI CTRYAG 1 cut(s) 498
BstSLI GKGCMC 1 cut(s) 41
BstV1I GCAGC 2 cut(s) 361, 484
BstX2I RGATCY 2 cut(s) 6, 232
BstYI RGATCY 2 cut(s) 6, 232
BsuRI GGCC 1 cut(s) 136
BtsIMutI CAGTG 1 cut(s) 486
Cac8I GCNNGC 2 cut(s) 372, 451
CciI TCATGA 1 cut(s) 334
CfoI GCGC 1 cut(s) 14
Cfr10I RCCGGY 1 cut(s) 14
Cfr13I GGNCC 2 cut(s) 225, 442
CviAII CATG 7 cut(s) 55, 164, 202, 335, 383, 450, 518
CviJI RGCY 8 cut(s) 136, 152, 191, 196, 254, 370, 631, 638
CviKI_1 RGCY 8 cut(s) 136, 152, 191, 196, 254, 370, 631, 638
DdeI CTNAG 1 cut(s) 192
DpnI GATC 4 cut(s) 8, 234, 389, 419
DpnII GATC 4 cut(s) 6, 232, 387, 417
EaeI YGGCCR 1 cut(s) 134
Eco130I CCWWGG 1 cut(s) 221
Eco47I GGWCC 2 cut(s) 225, 442
Eco57I CTGAAG 1 cut(s) 93
EcoO109I RGGNCCY 1 cut(s) 442
EcoT14I CCWWGG 1 cut(s) 221
EcoT22I ATGCAT 1 cut(s) 333
ErhI CCWWGG 1 cut(s) 221
FaeI CATG 7 cut(s) 58, 167, 205, 338, 386, 453, 521
FalI AAGNNNNNCTT 4 cut(s) 354, 386, 597, 629
FatI CATG 7 cut(s) 54, 163, 201, 334, 382, 449, 517
FauNDI CATATG 1 cut(s) 298
Fnu4HI GCNGC 2 cut(s) 375, 498
Fsp4HI GCNGC 2 cut(s) 375, 498
FspBI CTAG 1 cut(s) 255
GlaI GCGC 1 cut(s) 13
GluI GCNGC 2 cut(s) 375, 498
HaeIII GGCC 1 cut(s) 136
HapII CCGG 2 cut(s) 15, 137
HhaI GCGC 1 cut(s) 14
Hin1II CATG 7 cut(s) 58, 167, 205, 338, 386, 453, 521
Hin6I GCGC 1 cut(s) 12
HinP1I GCGC 1 cut(s) 12
HincII GTYRAC 1 cut(s) 478
HindII GTYRAC 1 cut(s) 478
HindIII AAGCTT 1 cut(s) 636
HinfI GANTC 5 cut(s) 59, 92, 146, 423, 568
HpaI GTTAAC 1 cut(s) 478
HpaII CCGG 2 cut(s) 15, 137
HphI GGTGA 1 cut(s) 79
Hpy166II GTNNAC 1 cut(s) 478
Hpy188I TCNGA 6 cut(s) 49, 64, 73, 294, 422, 533
Hpy188III TCNNGA 4 cut(s) 236, 335, 359, 391
Hpy8I GTNNAC 1 cut(s) 478
HpyAV CCTTC 4 cut(s) 94, 356, 388, 621
HpyCH4III ACNGT 3 cut(s) 208, 289, 490
HpyCH4IV ACGT 1 cut(s) 435
HpyCH4V TGCA 5 cut(s) 331, 377, 449, 500, 575
HpyF3I CTNAG 1 cut(s) 192
HpySE526I ACGT 1 cut(s) 435
Hsp92II CATG 7 cut(s) 58, 167, 205, 338, 386, 453, 521
HspAI GCGC 1 cut(s) 12
KspAI GTTAAC 1 cut(s) 478
Kzo9I GATC 4 cut(s) 6, 232, 387, 417
LmnI GCTCC 1 cut(s) 397
LpnPI CCDG 9 cut(s) 28, 150, 173, 235, 249, 336, 467, 486, 585
Lsp1109I GCAGC 2 cut(s) 361, 484
LweI GCATC 3 cut(s) 21, 118, 340
MaeI CTAG 1 cut(s) 255
MaeII ACGT 1 cut(s) 435
MaeIII GTNAC 3 cut(s) 17, 76, 490
MalI GATC 4 cut(s) 8, 234, 389, 419
MboI GATC 4 cut(s) 6, 232, 387, 417
MboII GAAGA 1 cut(s) 40
MflI RGATCY 2 cut(s) 6, 232
MhlI GDGCHC 1 cut(s) 41
MluCI AATT 2 cut(s) 168, 306
MlyI GAGTC 2 cut(s) 68, 101
MmeI TCCRAC 3 cut(s) 42, 72, 317
MnlI CCTC 4 cut(s) 91, 133, 408, 594
Mph1103I ATGCAT 1 cut(s) 333
MseI TTAA 4 cut(s) 309, 477, 593, 615
MslI CAYNNNNRTG 1 cut(s) 471
MspI CCGG 2 cut(s) 15, 137
NdeI CATATG 1 cut(s) 298
NdeII GATC 4 cut(s) 6, 232, 387, 417
NlaIII CATG 7 cut(s) 58, 167, 205, 338, 386, 453, 521
NmuCI GTSAC 3 cut(s) 17, 76, 490
NsiI ATGCAT 1 cut(s) 333
NspI RCATGY 2 cut(s) 453, 521
PaeI GCATGC 1 cut(s) 453
PagI TCATGA 1 cut(s) 334
PcsI WCGNNNNNNNCGW 1 cut(s) 32
PfeI GAWTC 3 cut(s) 146, 423, 568
PkrI GCNGC 2 cut(s) 376, 499
PleI GAGTC 2 cut(s) 67, 100
PpsI GAGTC 2 cut(s) 67, 100
PpuMI RGGWCCY 1 cut(s) 442
Psp5II RGGWCCY 1 cut(s) 442
PspPI GGNCC 2 cut(s) 225, 442
PspPPI RGGWCCY 1 cut(s) 442
PstI CTGCAG 1 cut(s) 502
PsuI RGATCY 2 cut(s) 6, 232
RseI CAYNNNNRTG 1 cut(s) 471
SaqAI TTAA 4 cut(s) 309, 477, 593, 615
SatI GCNGC 2 cut(s) 375, 498
Sau3AI GATC 4 cut(s) 6, 232, 387, 417
Sau96I GGNCC 2 cut(s) 225, 442
SchI GAGTC 2 cut(s) 68, 101
SduI GDGCHC 1 cut(s) 41
SetI ASST 9 cut(s) 83, 144, 198, 367, 438, 447, 528, 551, 640
SfaNI GCATC 3 cut(s) 21, 118, 340
SfcI CTRYAG 1 cut(s) 498
SinI GGWCC 2 cut(s) 225, 442
SmiMI CAYNNNNRTG 1 cut(s) 471
SphI GCATGC 1 cut(s) 453
Sse9I AATT 2 cut(s) 168, 306
SspI AATATT 1 cut(s) 315
SspMI CTAG 1 cut(s) 255
StyI CCWWGG 1 cut(s) 221
TaaI ACNGT 3 cut(s) 208, 289, 490
TaiI ACGT 1 cut(s) 438
TaqI TCGA 1 cut(s) 26
TasI AATT 2 cut(s) 168, 306
TfiI GAWTC 3 cut(s) 146, 423, 568
Tru1I TTAA 4 cut(s) 309, 477, 593, 615
Tru9I TTAA 4 cut(s) 309, 477, 593, 615
TscAI CASTG 1 cut(s) 493
TseFI GTSAC 3 cut(s) 17, 76, 490
TseI GCWGC 2 cut(s) 374, 497
Tsp45I GTSAC 3 cut(s) 17, 76, 490
TspGWI ACGGA 2 cut(s) 427, 495
TspRI CASTG 1 cut(s) 493
VpaK11BI GGWCC 2 cut(s) 225, 442
XapI RAATTY 1 cut(s) 168
XceI RCATGY 2 cut(s) 453, 521
XcmI CCANNNNNNNNNTGG 1 cut(s) 347
XspI CTAG 1 cut(s) 255
Zsp2I ATGCAT 1 cut(s) 333
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.