Rroxscaffold_4G00278600

50S ribosomal protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0015063
Physical Location & Seq
Forward (+)
1537410 .. 1539333
1924 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00278600.1

Sequence Viewer

Length: 726 bp
ATGTCTTGTATACGAAGTGGCAGAAATGCCCTCCGTCAGATCATCAGAGACACTCACAACGTCGTCCATTCTTCCGAGTCGGAGCGCATGATGAATCCTCTGGTTTTCGCTTGCCAAGGAGTTCGCCATAGGAAATTGGAAGTGATTTTGACGACGAATGTGGATAAGCTCGGCAAGGCCGGTGAGACTGTGAAGGTTGCGCCAGGGCATTTCCGCAACCACTTGATGCCGAAATTGCTTGCTGTACCCAACATTGACAAGTATGCCTATCTCATAAGACAGCAGAGAAAGAATGCTCCGCTGGAAGAAGAAGAGGAGAAGGAGGAGGTTAAAGTGGTTACTGTGTCGGAGGAAGTTAAGATGAAAGAATATGAAAAGGCAGCGAAGCGTCTGGATAATGCTCGTCTGCTTAGTCTCTTGTTGGAGGTAGATGTGAAGCTCTCTATTCTGATGCTGGTGTTGCGGAGGAACATTAATCTTGAAAAGTTCAGGACACGTGCTACAAAGGAAGACCCTATAGAATTGCGTTCTGCTGTGACCAAGGAGGATATTGTGGCTGAGGTGGCAAGGCAGCTTTCTATAGGCTTAGAACCTGAGAGTGTGCATCTACCATCACCATTGTCAACTGTAGGAGAGTATGAGATACCCCTGCGCCTTCCGAGATCCATCCCTTTGCCGGCAGGGAAGGTTCATTGGACGCTTAATGTTAAAATCCGATGTGCATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03010 map03010
Pfam Domains
Protein Families
Ribosomal_L9_C Ribosomal_L9_N

Protein Analysis

241

Amino Acids

27.44

Weight (kDa)

9.42

Isoelectric Point (pI)

57.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ribosomal_L9_N PF01281 47 - 83 7.3e-13 Ribosomal protein L9, N-terminal domain
Ribosomal_L9_C PF03948 174 - 222 8.5e-06 Ribosomal protein L9, C-terminal 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: OG0015063)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G53070
fragaria_vesca FvH4_7g32000
malus_domestica MD07G1293600.v1.1
prunus_persica Prupe.2G313400_v2.0.a1 Prupe.2G313400_v2.0.a1 Prupe.2G313400_v2.0.a1
pyrus_communis pycom07g26640
rosa_chinensis RchiOBHm_Chr1g0381511
rosa_laevigata RLG00000026226
rosa_roxburghii Rroxscaffold_4G00278600
rosa_rugosa Rorug01G0429100
rosa_samantha Rh1AG452300 Rh1BG409600 Rh1CG424100 Rh1DG440900
rosa_wichuraiana Rw1G039490

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 10
AciI CCGC 3 cut(s) 214, 299, 463
AclWI GGATC 1 cut(s) 657
AcvI CACGTG 1 cut(s) 497
AfaI GTAC 1 cut(s) 246
AfiI CCNNNNNNNGG 1 cut(s) 676
AflIII ACRYGT 1 cut(s) 494
AgsI TTSAA 1 cut(s) 482
AjnI CCWGG 1 cut(s) 202
AluBI AGCT 3 cut(s) 169, 439, 574
AluI AGCT 3 cut(s) 169, 439, 574
Alw26I GTCTC 3 cut(s) 42, 179, 419
AlwI GGATC 1 cut(s) 657
AoxI GGCC 1 cut(s) 177
ApeKI GCWGC 2 cut(s) 380, 571
AseI ATTAAT 1 cut(s) 474
AspLEI GCGC 3 cut(s) 87, 202, 654
AsuHPI GGTGA 2 cut(s) 194, 606
BbrPI CACGTG 1 cut(s) 497
BbsI GAAGAC 1 cut(s) 516
BbvCI CCTCAGC 1 cut(s) 558
BbvI GCAGC 2 cut(s) 392, 583
BccI CCATC 2 cut(s) 619, 674
BciT130I CCWGG 1 cut(s) 204
BcoDI GTCTC 3 cut(s) 42, 179, 419
BfmI CTRYAG 3 cut(s) 516, 579, 627
BisI GCNGC 2 cut(s) 381, 572
BlsI GCNGC 2 cut(s) 382, 573
Bme1390I CCNGG 1 cut(s) 204
BmrFI CCNGG 1 cut(s) 204
BmsI GCATC 3 cut(s) 216, 441, 613
BpiI GAAGAC 1 cut(s) 516
Bpu10I CCTNAGC 1 cut(s) 558
BsaAI YACGTR 1 cut(s) 497
BsaJI CCNNGG 3 cut(s) 115, 203, 540
Bsc4I CCNNNNNNNGG 1 cut(s) 676
Bse118I RCCGGY 2 cut(s) 179, 676
BseBI CCWGG 1 cut(s) 204
BseDI CCNNGG 3 cut(s) 115, 203, 540
BseGI GGATG 1 cut(s) 666
BseLI CCNNNNNNNGG 1 cut(s) 676
BseMII CTCAG 2 cut(s) 549, 585
BseRI GAGGAG 2 cut(s) 329, 338
BseXI GCAGC 2 cut(s) 392, 583
BshFI GGCC 1 cut(s) 179
BsiSI CCGG 2 cut(s) 180, 677
BslI CCNNNNNNNGG 1 cut(s) 676
BsmAI GTCTC 3 cut(s) 42, 179, 419
BsmI GAATGC 1 cut(s) 298
BsnI GGCC 1 cut(s) 179
Bsp143I GATC 2 cut(s) 39, 662
BspACI CCGC 3 cut(s) 214, 299, 463
BspANI GGCC 1 cut(s) 179
BspCNI CTCAG 2 cut(s) 550, 586
BspPI GGATC 1 cut(s) 657
BsrFI RCCGGY 2 cut(s) 179, 676
BssAI RCCGGY 2 cut(s) 179, 676
BssECI CCNNGG 3 cut(s) 115, 203, 540
BssMI GATC 2 cut(s) 39, 662
BssNAI GTATAC 1 cut(s) 11
BssT1I CCWWGG 2 cut(s) 115, 540
Bst1107I GTATAC 1 cut(s) 11
Bst2UI CCWGG 1 cut(s) 204
Bst4CI ACNGT 3 cut(s) 190, 343, 628
Bst6I CTCTTC 1 cut(s) 306
BstBAI YACGTR 1 cut(s) 497
BstC8I GCNNGC 3 cut(s) 112, 240, 678
BstDEI CTNAG 4 cut(s) 410, 558, 586, 594
BstF5I GGATG 1 cut(s) 666
BstHHI GCGC 3 cut(s) 87, 202, 654
BstKTI GATC 2 cut(s) 42, 665
BstMAI GTCTC 3 cut(s) 42, 179, 419
BstMBI GATC 2 cut(s) 39, 662
BstMWI GCNNNNNNNGC 3 cut(s) 235, 460, 563
BstNI CCWGG 1 cut(s) 204
BstSCI CCNGG 1 cut(s) 202
BstSFI CTRYAG 3 cut(s) 516, 579, 627
BstV1I GCAGC 2 cut(s) 392, 583
BstV2I GAAGAC 1 cut(s) 516
BstX2I RGATCY 1 cut(s) 662
BstYI RGATCY 1 cut(s) 662
BstZ17I GTATAC 1 cut(s) 11
BsuRI GGCC 1 cut(s) 179
BtsCI GGATG 1 cut(s) 666
Cac8I GCNNGC 3 cut(s) 112, 240, 678
CfoI GCGC 3 cut(s) 87, 202, 654
Cfr10I RCCGGY 2 cut(s) 179, 676
CseI GACGC 2 cut(s) 377, 706
Csp6I GTAC 1 cut(s) 245
CviAII CATG 1 cut(s) 88
CviJI RGCY 6 cut(s) 169, 179, 439, 557, 574, 585
CviKI_1 RGCY 6 cut(s) 169, 179, 439, 557, 574, 585
CviQI GTAC 1 cut(s) 245
DdeI CTNAG 4 cut(s) 410, 558, 586, 594
DpnI GATC 2 cut(s) 41, 664
DpnII GATC 2 cut(s) 39, 662
Eam1104I CTCTTC 1 cut(s) 306
EarI CTCTTC 1 cut(s) 306
Eco130I CCWWGG 2 cut(s) 115, 540
Eco72I CACGTG 1 cut(s) 497
EcoRII CCWGG 1 cut(s) 202
EcoT14I CCWWGG 2 cut(s) 115, 540
ErhI CCWWGG 2 cut(s) 115, 540
FaeI CATG 1 cut(s) 91
FatI CATG 1 cut(s) 87
FblI GTMKAC 1 cut(s) 10
Fnu4HI GCNGC 2 cut(s) 381, 572
FokI GGATG 1 cut(s) 653
Fsp4HI GCNGC 2 cut(s) 381, 572
GlaI GCGC 3 cut(s) 86, 201, 653
GluI GCNGC 2 cut(s) 381, 572
HaeIII GGCC 1 cut(s) 179
HapII CCGG 2 cut(s) 180, 677
HgaI GACGC 2 cut(s) 377, 706
HhaI GCGC 3 cut(s) 87, 202, 654
Hin1II CATG 1 cut(s) 91
Hin6I GCGC 3 cut(s) 85, 200, 652
HinP1I GCGC 3 cut(s) 85, 200, 652
HincII GTYRAC 1 cut(s) 624
HindII GTYRAC 1 cut(s) 624
HinfI GANTC 2 cut(s) 77, 94
HpaII CCGG 2 cut(s) 180, 677
HphI GGTGA 2 cut(s) 194, 606
Hpy166II GTNNAC 2 cut(s) 11, 624
Hpy188I TCNGA 8 cut(s) 39, 47, 76, 82, 349, 450, 660, 716
Hpy188III TCNNGA 3 cut(s) 392, 479, 490
Hpy8I GTNNAC 2 cut(s) 11, 624
Hpy99I CGWCG 2 cut(s) 65, 157
HpyAV CCTTC 4 cut(s) 187, 313, 665, 679
HpyCH4III ACNGT 3 cut(s) 190, 343, 628
HpyCH4IV ACGT 2 cut(s) 60, 496
HpyCH4V TGCA 2 cut(s) 604, 722
HpyF10VI GCNNNNNNNGC 3 cut(s) 235, 460, 563
HpyF3I CTNAG 4 cut(s) 410, 558, 586, 594
HpySE526I ACGT 2 cut(s) 60, 496
Hsp92II CATG 1 cut(s) 91
HspAI GCGC 3 cut(s) 85, 200, 652
KroI GCCGGC 1 cut(s) 676
KroNI GCCGGC 1 cut(s) 678
Kzo9I GATC 2 cut(s) 39, 662
LmnI GCTCC 2 cut(s) 82, 301
Lsp1109I GCAGC 2 cut(s) 392, 583
LweI GCATC 3 cut(s) 216, 441, 613
MaeII ACGT 2 cut(s) 60, 496
MaeIII GTNAC 2 cut(s) 337, 535
MalI GATC 2 cut(s) 41, 664
MboI GATC 2 cut(s) 39, 662
MboII GAAGA 5 cut(s) 63, 317, 320, 323, 521
MflI RGATCY 1 cut(s) 662
MluCI AATT 3 cut(s) 134, 233, 521
MlyI GAGTC 1 cut(s) 86
MmeI TCCRAC 3 cut(s) 60, 327, 402
MroNI GCCGGC 1 cut(s) 676
MseI TTAA 5 cut(s) 330, 357, 474, 702, 708
MspA1I CMGCKG 1 cut(s) 301
MspI CCGG 2 cut(s) 180, 677
MspR9I CCNGG 1 cut(s) 204
Mva1269I GAATGC 1 cut(s) 298
MvaI CCWGG 1 cut(s) 204
MwoI GCNNNNNNNGC 3 cut(s) 235, 460, 563
NaeI GCCGGC 1 cut(s) 678
NdeII GATC 2 cut(s) 39, 662
NgoMIV GCCGGC 1 cut(s) 676
NlaIII CATG 1 cut(s) 91
NmeAIII GCCGAG 1 cut(s) 150
NmuCI GTSAC 1 cut(s) 535
PctI GAATGC 1 cut(s) 298
PdiI GCCGGC 1 cut(s) 678
PfeI GAWTC 1 cut(s) 94
PkrI GCNGC 2 cut(s) 382, 573
PleI GAGTC 1 cut(s) 85
PmaCI CACGTG 1 cut(s) 497
PmlI CACGTG 1 cut(s) 497
PpsI GAGTC 1 cut(s) 85
Ppu21I YACGTR 1 cut(s) 497
PshBI ATTAAT 1 cut(s) 474
Psp6I CCWGG 1 cut(s) 202
PspCI CACGTG 1 cut(s) 497
PspGI CCWGG 1 cut(s) 202
PsuI RGATCY 1 cut(s) 662
RsaI GTAC 1 cut(s) 246
RsaNI GTAC 1 cut(s) 245
SaqAI TTAA 5 cut(s) 330, 357, 474, 702, 708
SatI GCNGC 2 cut(s) 381, 572
Sau3AI GATC 2 cut(s) 39, 662
SchI GAGTC 1 cut(s) 86
ScrFI CCNGG 1 cut(s) 204
SfaNI GCATC 3 cut(s) 216, 441, 613
SfcI CTRYAG 3 cut(s) 516, 579, 627
Sse9I AATT 3 cut(s) 134, 233, 521
SsiI CCGC 3 cut(s) 214, 299, 463
StyD4I CCNGG 1 cut(s) 202
StyI CCWWGG 2 cut(s) 115, 540
TaaI ACNGT 3 cut(s) 190, 343, 628
TaiI ACGT 2 cut(s) 63, 499
TasI AATT 3 cut(s) 134, 233, 521
TfiI GAWTC 1 cut(s) 94
Tru1I TTAA 5 cut(s) 330, 357, 474, 702, 708
Tru9I TTAA 5 cut(s) 330, 357, 474, 702, 708
TseFI GTSAC 1 cut(s) 535
TseI GCWGC 2 cut(s) 380, 571
Tsp45I GTSAC 1 cut(s) 535
TspDTI ATGAA 4 cut(s) 107, 377, 387, 680
TspGWI ACGGA 1 cut(s) 23
VspI ATTAAT 1 cut(s) 474
XmiI GTMKAC 1 cut(s) 10
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.