Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0006687

Physical Location & Seq

Genomic Coordinates Forward (+)

28444160 .. 28449931

Gene Structure 5772 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG263800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 801 bp

ATGGCGCCCAACAAGCGGTTCAAGAACCACAAGCCCCATAACCATCGTGGCGAATCTAGCCGAACCCGTACCCATCTTCCACACGACAACGACTCCCTACCATCTGAACAAGCTACTGAAGAGGAGCCAATACGTCCCAAAATCCAGCTGGCCATGTGGGATTTTGGCCAATGCGATGCAAAAAGGTGCACTGGACGCAAGCTCTCAAGATTTGGATTTTTGAAAGAGTTGCGGGTGAACCATGGTTTTGGAGGCATTGTATTGAGTCCAGTGGGGACGGATTGTGTCTCAAGAGAAGATTATAGCTTAATCCAGCGAAAAGGTTTAGCTGTTGTGGATTGCTCTTGGGCACGCTTGGGTGATGTACCCTTTGTGAAGCTGCGTTGCACTGCTCCTCGCCTCTTGCCTTGGCTTGTAGCAGCAAATCCAGTAAATTATGGTCGACCATGTGAACTATCCTGTGTGGAGGCCTTATCTGCAGCTTTATTCATATGTGGGGAAGAGGAAACTGCAAATTTGTTGCTCGGAAAGTTCAAATGGGGTCATGCTTTCCTATCCCTCAATAGGGAACTTCTAAAGGCATACTCTAATTGTGAAAACAGTGCTGAGATTATTTCATTCCAAAATGCCTGGCTTGCACAGGAAAGACAAGTTCCAAAGGTTCCTACAGAAGTAGAAGGAGGAGAGAGGTCAGCTCGCAGTGATGATGAGGGTTCTTATGATTCTGACGATGGGCTTCCGCCACTTGAAAAGAATATGAATCATTTAGACCTAGAGGATAGTGATGAAGAAAGTGAGTAG

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

RLI Ribo_biogen_C

Protein Analysis

266

Amino Acids

29.85

Weight (kDa)

5.58

Isoelectric Point (pI)

49.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Fer4_RLI	PF04068	49 - 81	8.2e-14	Possible Fer4-like domain in RNase L inhibitor, RLI
Ribo_biogen_C	PF04034	86 - 212	8.5e-52	Ribosome biogenesis protein, C-terminal

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0006687)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G10070 AT5G10070
fragaria_vesca	FvH4_1g21690 FvH4_1g21690 FvH4_1g21690 FvH4_1g21690
malus_domestica	MD01G1023100.v1.1 MD15G1329600.v1.1
prunus_persica	Prupe.6G178600_v2.0.a1 Prupe.6G178600_v2.0.a1 Prupe.6G178600_v2.0.a1 Prupe.6G178600_v2.0.a1
pyrus_communis	pycom01g05130 pycom15g29590
rosa_chinensis	RchiOBHm_Chr2g0115571
rosa_laevigata	RLG00000018194
rosa_multiflora	Rmu_sc0021766.1_g000001
rosa_roxburghii	Rroxscaffold_2G00128100 Rroxscaffold_2G00128980
rosa_rugosa	Rorug02G0198100 Rorug02G0198200
rosa_samantha	Rh2AG255600 Rh2BG266300 Rh2CG260800 Rh2DG263800
rosa_wichuraiana	Rw2G019990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	4
AccI	GTMKAC	1 cut(s)	442
AciI	CCGC	3 cut(s)	16, 232, 740
AcoI	YGGCCR	2 cut(s)	150, 166
AcsI	RAATTY	1 cut(s)	514
AcuI	CTGAAG	1 cut(s)	138
AcyI	GRCGYC	1 cut(s)	5
AfaI	GTAC	2 cut(s)	70, 366
AfiI	CCNNNNNNNGG	3 cut(s)	15, 564, 565
AgsI	TTSAA	4 cut(s)	22, 223, 535, 749
AjnI	CCWGG	1 cut(s)	629
AjuI	GAANNNNNNNTTGG	1 cut(s)	34
AluBI	AGCT	8 cut(s)	113, 148, 202, 306, 329, 379, 482, 695
AluI	AGCT	8 cut(s)	113, 148, 202, 306, 329, 379, 482, 695
Alw21I	GWGCWC	1 cut(s)	191
Alw26I	GTCTC	1 cut(s)	292
Alw44I	GTGCAC	1 cut(s)	187
AoxI	GGCC	3 cut(s)	150, 166, 468
ApaLI	GTGCAC	1 cut(s)	187
ApeKI	GCWGC	3 cut(s)	379, 419, 479
ApoI	RAATTY	1 cut(s)	514
AspLEI	GCGC	1 cut(s)	7
AsuHPI	GGTGA	2 cut(s)	247, 371
BaeGI	GKGCMC	2 cut(s)	191, 352
BalI	TGGCCA	2 cut(s)	152, 168
BanI	GGYRCC	1 cut(s)	4
Bbv12I	GWGCWC	1 cut(s)	191
BbvI	GCAGC	3 cut(s)	366, 431, 491
BccI	CCATC	4 cut(s)	51, 81, 109, 725
BciT130I	CCWGG	1 cut(s)	631
BcoDI	GTCTC	1 cut(s)	292
BfaI	CTAG	2 cut(s)	57, 773
BfmI	CTRYAG	2 cut(s)	477, 666
BfoI	RGCGCY	1 cut(s)	8
BisI	GCNGC	3 cut(s)	380, 420, 480
BlsI	GCNGC	3 cut(s)	381, 421, 481
Bme1390I	CCNGG	1 cut(s)	631
BmiI	GGNNCC	3 cut(s)	6, 126, 663
BmrFI	CCNGG	1 cut(s)	631
BmsI	GCATC	1 cut(s)	166
BplI	GAGNNNNNCTC	2 cut(s)	679, 711
BpuEI	CTTGAG	2 cut(s)	190, 274
BsaHI	GRCGYC	1 cut(s)	5
BsaJI	CCNNGG	2 cut(s)	241, 407
BsaXI	ACNNNNNCTCC	4 cut(s)	77, 107, 243, 273
Bsc4I	CCNNNNNNNGG	3 cut(s)	15, 564, 565
Bse1I	ACTGG	3 cut(s)	196, 269, 428
BseBI	CCWGG	1 cut(s)	631
BseDI	CCNNGG	2 cut(s)	241, 407
BseLI	CCNNNNNNNGG	3 cut(s)	15, 564, 565
BseMII	CTCAG	1 cut(s)	597
BseNI	ACTGG	3 cut(s)	196, 269, 428
BseRI	GAGGAG	3 cut(s)	137, 384, 696
BseSI	GKGCMC	2 cut(s)	191, 352
BseXI	GCAGC	3 cut(s)	366, 431, 491
BshFI	GGCC	3 cut(s)	152, 168, 470
BshNI	GGYRCC	1 cut(s)	4
BsiHKAI	GWGCWC	1 cut(s)	191
BslFI	GGGAC	2 cut(s)	120, 289
BslI	CCNNNNNNNGG	3 cut(s)	15, 564, 565
BsmAI	GTCTC	1 cut(s)	292
BsmFI	GGGAC	2 cut(s)	120, 289
BsnI	GGCC	3 cut(s)	152, 168, 470
Bsp1286I	GDGCHC	2 cut(s)	191, 352
Bsp19I	CCATGG	1 cut(s)	241
BspACI	CCGC	3 cut(s)	16, 232, 740
BspANI	GGCC	3 cut(s)	152, 168, 470
BspCNI	CTCAG	1 cut(s)	598
BspLI	GGNNCC	3 cut(s)	6, 126, 663
BspMAI	CTGCAG	1 cut(s)	481
BspT107I	GGYRCC	1 cut(s)	4
BsrI	ACTGG	3 cut(s)	196, 269, 428
BssECI	CCNNGG	2 cut(s)	241, 407
BssNI	GRCGYC	1 cut(s)	5
BssT1I	CCWWGG	2 cut(s)	241, 407
Bst2UI	CCWGG	1 cut(s)	631
Bst4CI	ACNGT	1 cut(s)	602
Bst6I	CTCTTC	2 cut(s)	114, 495
BstACI	GRCGYC	1 cut(s)	5
BstC8I	GCNNGC	5 cut(s)	150, 200, 352, 636, 697
BstDEI	CTNAG	1 cut(s)	606
BstDSI	CCRYGG	1 cut(s)	241
BstH2I	RGCGCY	1 cut(s)	8
BstHHI	GCGC	1 cut(s)	7
BstMAI	GTCTC	1 cut(s)	292
BstMWI	GCNNNNNNNGC	5 cut(s)	13, 57, 195, 476, 635
BstNI	CCWGG	1 cut(s)	631
BstSCI	CCNGG	1 cut(s)	629
BstSFI	CTRYAG	2 cut(s)	477, 666
BstSLI	GKGCMC	2 cut(s)	191, 352
BstV1I	GCAGC	3 cut(s)	366, 431, 491
BstXI	CCANNNNNNTGG	1 cut(s)	248
BsuRI	GGCC	3 cut(s)	152, 168, 470
BtgI	CCRYGG	1 cut(s)	241
BtgZI	GCGATG	1 cut(s)	189
BtsI	GCAGTG	2 cut(s)	387, 706
BtsIMutI	CAGTG	5 cut(s)	189, 276, 387, 607, 706
Cac8I	GCNNGC	5 cut(s)	150, 200, 352, 636, 697
CfoI	GCGC	1 cut(s)	7
CseI	GACGC	1 cut(s)	204
Csp6I	GTAC	2 cut(s)	69, 365
CviAII	CATG	4 cut(s)	154, 242, 447, 545
CviQI	GTAC	2 cut(s)	69, 365
DdeI	CTNAG	1 cut(s)	606
DinI	GGCGCC	1 cut(s)	6
EaeI	YGGCCR	2 cut(s)	150, 166
Eam1104I	CTCTTC	2 cut(s)	114, 495
EarI	CTCTTC	2 cut(s)	114, 495
EciI	GGCGGA	1 cut(s)	729
Eco130I	CCWWGG	2 cut(s)	241, 407
Eco147I	AGGCCT	1 cut(s)	470
Eco57I	CTGAAG	1 cut(s)	138
EcoRII	CCWGG	1 cut(s)	629
EcoT14I	CCWWGG	2 cut(s)	241, 407
EgeI	GGCGCC	1 cut(s)	6
EheI	GGCGCC	1 cut(s)	6
ErhI	CCWWGG	2 cut(s)	241, 407
FaeI	CATG	4 cut(s)	157, 245, 450, 548
FaqI	GGGAC	2 cut(s)	120, 289
FatI	CATG	4 cut(s)	153, 241, 446, 544
FauI	CCCGC	1 cut(s)	225
FauNDI	CATATG	1 cut(s)	491
FblI	GTMKAC	1 cut(s)	442
Fnu4HI	GCNGC	3 cut(s)	380, 420, 480
Fsp4HI	GCNGC	3 cut(s)	380, 420, 480
FspBI	CTAG	2 cut(s)	57, 773
GlaI	GCGC	1 cut(s)	6
GluI	GCNGC	3 cut(s)	380, 420, 480
HaeII	RGCGCY	1 cut(s)	8
HaeIII	GGCC	3 cut(s)	152, 168, 470
HgaI	GACGC	1 cut(s)	204
HhaI	GCGC	1 cut(s)	7
Hin1I	GRCGYC	1 cut(s)	5
Hin1II	CATG	4 cut(s)	157, 245, 450, 548
Hin6I	GCGC	1 cut(s)	5
HinP1I	GCGC	1 cut(s)	5
HincII	GTYRAC	1 cut(s)	443
HindII	GTYRAC	1 cut(s)	443
HinfI	GANTC	5 cut(s)	53, 92, 265, 722, 760
HphI	GGTGA	2 cut(s)	247, 371
Hpy166II	GTNNAC	4 cut(s)	189, 238, 443, 452
Hpy188I	TCNGA	3 cut(s)	106, 527, 727
Hpy188III	TCNNGA	3 cut(s)	22, 207, 291
Hpy8I	GTNNAC	4 cut(s)	189, 238, 443, 452
HpyAV	CCTTC	1 cut(s)	671
HpyCH4III	ACNGT	1 cut(s)	602
HpyCH4IV	ACGT	1 cut(s)	133
HpyCH4V	TGCA	6 cut(s)	179, 189, 387, 479, 512, 638
HpyF10VI	GCNNNNNNNGC	5 cut(s)	13, 57, 195, 476, 635
HpyF3I	CTNAG	1 cut(s)	606
HpySE526I	ACGT	1 cut(s)	133
Hsp92I	GRCGYC	1 cut(s)	5
Hsp92II	CATG	4 cut(s)	157, 245, 450, 548
HspAI	GCGC	1 cut(s)	5
KasI	GGCGCC	1 cut(s)	4
LmnI	GCTCC	2 cut(s)	124, 397
Lsp1109I	GCAGC	3 cut(s)	366, 431, 491
LweI	GCATC	1 cut(s)	166
MaeI	CTAG	2 cut(s)	57, 773
MaeII	ACGT	1 cut(s)	133
MboII	GAAGA	5 cut(s)	68, 131, 308, 512, 800
MhlI	GDGCHC	2 cut(s)	191, 352
MlsI	TGGCCA	2 cut(s)	152, 168
MluCI	AATT	3 cut(s)	433, 514, 589
MluNI	TGGCCA	2 cut(s)	152, 168
Mly113I	GGCGCC	1 cut(s)	5
MlyI	GAGTC	2 cut(s)	86, 274
Mox20I	TGGCCA	2 cut(s)	152, 168
MscI	TGGCCA	2 cut(s)	152, 168
MseI	TTAA	1 cut(s)	308
Msp20I	TGGCCA	2 cut(s)	152, 168
MspA1I	CMGCKG	1 cut(s)	148
MspR9I	CCNGG	1 cut(s)	631
MvaI	CCWGG	1 cut(s)	631
MwoI	GCNNNNNNNGC	5 cut(s)	13, 57, 195, 476, 635
NarI	GGCGCC	1 cut(s)	5
NcoI	CCATGG	1 cut(s)	241
NdeI	CATATG	1 cut(s)	491
NlaIII	CATG	4 cut(s)	157, 245, 450, 548
NlaIV	GGNNCC	3 cut(s)	6, 126, 663
PceI	AGGCCT	1 cut(s)	470
PfeI	GAWTC	3 cut(s)	53, 722, 760
PkrI	GCNGC	3 cut(s)	381, 421, 481
PleI	GAGTC	2 cut(s)	86, 273
PluTI	GGCGCC	1 cut(s)	8
PpsI	GAGTC	2 cut(s)	86, 273
Psp6I	CCWGG	1 cut(s)	629
PspGI	CCWGG	1 cut(s)	629
PspN4I	GGNNCC	3 cut(s)	6, 126, 663
PstI	CTGCAG	1 cut(s)	481
PvuII	CAGCTG	1 cut(s)	148
RsaI	GTAC	2 cut(s)	70, 366
RsaNI	GTAC	2 cut(s)	69, 365
SalI	GTCGAC	1 cut(s)	441
SaqAI	TTAA	1 cut(s)	308
SatI	GCNGC	3 cut(s)	380, 420, 480
SchI	GAGTC	2 cut(s)	86, 274
ScrFI	CCNGG	1 cut(s)	631
SduI	GDGCHC	2 cut(s)	191, 352
SfaNI	GCATC	1 cut(s)	166
SfcI	CTRYAG	2 cut(s)	477, 666
SfoI	GGCGCC	1 cut(s)	6
SmlI	CTYRAG	2 cut(s)	205, 289
SmoI	CTYRAG	2 cut(s)	205, 289
Sse9I	AATT	3 cut(s)	433, 514, 589
SseBI	AGGCCT	1 cut(s)	470
SsiI	CCGC	3 cut(s)	16, 232, 740
SspDI	GGCGCC	1 cut(s)	4
SspMI	CTAG	2 cut(s)	57, 773
StuI	AGGCCT	1 cut(s)	470
StyD4I	CCNGG	1 cut(s)	629
StyI	CCWWGG	2 cut(s)	241, 407
TaaI	ACNGT	1 cut(s)	602
TaiI	ACGT	1 cut(s)	136
TaqI	TCGA	1 cut(s)	442
TasI	AATT	3 cut(s)	433, 514, 589
TfiI	GAWTC	3 cut(s)	53, 722, 760
Tru1I	TTAA	1 cut(s)	308
Tru9I	TTAA	1 cut(s)	308
TscAI	CASTG	5 cut(s)	196, 276, 394, 607, 706
TseI	GCWGC	3 cut(s)	379, 419, 479
TspDTI	ATGAA	4 cut(s)	478, 606, 773, 801
TspGWI	ACGGA	1 cut(s)	293
TspRI	CASTG	5 cut(s)	196, 276, 394, 607, 706
VneI	GTGCAC	1 cut(s)	187
XapI	RAATTY	1 cut(s)	514
XcmI	CCANNNNNNNNNTGG	2 cut(s)	44, 145
XmiI	GTMKAC	1 cut(s)	442
XspI	CTAG	2 cut(s)	57, 773

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.