Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0013443

Physical Location & Seq

Genomic Coordinates Reverse (-)

60874142 .. 60875391

Gene Structure 1250 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG380400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 651 bp

ATGGAGGGAGAAGAAGAGAGCAAGCAATCAGATCCGCGGAGCTTAATCCCTTTCTCCGAGCTCAACCAAGTCAGCTCGGATTTCATTCTAGCCATGACTATGCACGAACAAGAGCACGCATACAGGATGCTCGAAACAATTGAAAGTGAAAGCGAAGAAGAAGATGAAGAAGATGATGATGATGATCAAATTCATGATGTCGACGATGATACTTCTTCCTCTGAGGAATTCTATCATCAAGATGATGCTGATTTCTTTGATCTTCTCGGTGACGATAATGGAAGCGACAGTGACCAAGAAATGGAGGAAGATGACTTTGGTGATCTGGACGTGGATGAACTAACTTATGAGGAATTGTTAGCACTTGGAGAGTTCATAGGGGAAGAGAAAAGAGGTCTGCCCAGCAATGAAATCTCTACATGTTTGCATCCCCACACATACAAATTGTCTCCAATTTATCAGAGCAAGAATAGCATTATTGATAAGTGTGTGGTATGTCAGTATGAGTATGAAGATGGTGAGGCTTTGGCTGCATTGCCTTGTGAACACCCTTATCATTTGGAGTGTATAAGCAACTGGCTTCAGATTAAAAAGTGTTGCCCTATTTGCAGCACAGAAGTTTCATCATCATCCAAAACCAAAATTGTATAG

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

zf-RING_2

Protein Analysis

216

Amino Acids

24.66

Weight (kDa)

4.05

Isoelectric Point (pI)

60.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-rbx1	PF12678	156 - 203	7.7e-10	RING-H2 zinc finger domain
zf-RING_2	PF13639	161 - 203	9.4e-12	Ring finger domain
zf-C3HC4_2	PF13923	162 - 203	4.4e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	163 - 190	3.1e-07	RING-like zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0013443)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G47180
fragaria_vesca	FvH4_2g27450
malus_domestica	MD00G1028500.v1.1 MD15G1344800.v1.1
prunus_persica	Prupe.1G493000_v2.0.a1
pyrus_communis	pycom08g13690 pycom15g30940
rosa_chinensis	RchiOBHm_Chr6g0296291
rosa_laevigata	RLG00000011709
rosa_multiflora	Rmu_sc0004708.1_g000007
rosa_roxburghii	Rroxscaffold_7G00171660 Rroxscaffold_7G00178410
rosa_rugosa	Rorug06G0260700
rosa_samantha	Rh6AG372400 Rh6BG380400 Rh6CG385800 Rh6DG373300
rosa_wichuraiana	Rw6G032470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	301
AccI	GTMKAC	1 cut(s)	201
AccII	CGCG	1 cut(s)	37
AciI	CCGC	2 cut(s)	35, 37
AclWI	GGATC	1 cut(s)	26
AcsI	RAATTY	2 cut(s)	189, 227
AcuI	CTGAAG	1 cut(s)	566
AfiI	CCNNNNNNNGG	1 cut(s)	301
AflIII	ACRYGT	1 cut(s)	419
AgsI	TTSAA	1 cut(s)	143
AjiI	CACGTC	1 cut(s)	331
AjuI	GAANNNNNNNTTGG	2 cut(s)	300, 332
AluBI	AGCT	3 cut(s)	42, 61, 75
AluI	AGCT	3 cut(s)	42, 61, 75
Alw21I	GWGCWC	2 cut(s)	63, 117
Alw26I	GTCTC	1 cut(s)	453
AlwI	GGATC	1 cut(s)	26
ApeKI	GCWGC	2 cut(s)	530, 609
ApoI	RAATTY	2 cut(s)	189, 227
AsuHPI	GGTGA	3 cut(s)	281, 332, 530
BanII	GRGCYC	1 cut(s)	63
Bbv12I	GWGCWC	2 cut(s)	63, 117
BbvI	GCAGC	2 cut(s)	517, 621
BccI	CCATC	1 cut(s)	509
BclI	TGATCA	1 cut(s)	184
BcoDI	GTCTC	1 cut(s)	453
BfaI	CTAG	1 cut(s)	89
BisI	GCNGC	2 cut(s)	531, 610
BlsI	GCNGC	2 cut(s)	532, 611
BmgBI	CACGTC	1 cut(s)	331
BmsI	GCATC	3 cut(s)	117, 235, 436
BsaBI	GATNNNNATC	1 cut(s)	183
BsaJI	CCNNGG	1 cut(s)	35
Bsc4I	CCNNNNNNNGG	1 cut(s)	301
Bse1I	ACTGG	1 cut(s)	581
Bse3DI	GCAATG	2 cut(s)	412, 533
Bse8I	GATNNNNATC	1 cut(s)	183
BseDI	CCNNGG	1 cut(s)	35
BseGI	GGATG	4 cut(s)	132, 340, 427, 629
BseJI	GATNNNNATC	1 cut(s)	183
BseLI	CCNNNNNNNGG	1 cut(s)	301
BseMI	GCAATG	2 cut(s)	412, 533
BseMII	CTCAG	1 cut(s)	213
BseNI	ACTGG	1 cut(s)	581
BseXI	GCAGC	2 cut(s)	517, 621
BseYI	CCCAGC	1 cut(s)	401
Bsh1236I	CGCG	1 cut(s)	37
BsiHKAI	GWGCWC	2 cut(s)	63, 117
BslI	CCNNNNNNNGG	1 cut(s)	301
BsmAI	GTCTC	1 cut(s)	453
Bsp1286I	GDGCHC	2 cut(s)	63, 117
Bsp143I	GATC	4 cut(s)	31, 184, 259, 322
BspACI	CCGC	2 cut(s)	35, 37
BspCNI	CTCAG	1 cut(s)	214
BspFNI	CGCG	1 cut(s)	37
BspHI	TCATGA	1 cut(s)	193
BspPI	GGATC	1 cut(s)	26
BsrDI	GCAATG	2 cut(s)	412, 533
BsrI	ACTGG	1 cut(s)	581
BssECI	CCNNGG	1 cut(s)	35
BssMI	GATC	4 cut(s)	31, 184, 259, 322
Bst4CI	ACNGT	1 cut(s)	290
Bst6I	CTCTTC	2 cut(s)	9, 378
BstC8I	GCNNGC	2 cut(s)	23, 117
BstDEI	CTNAG	1 cut(s)	222
BstDSI	CCRYGG	1 cut(s)	35
BstF5I	GGATG	4 cut(s)	132, 340, 427, 629
BstFNI	CGCG	1 cut(s)	37
BstKTI	GATC	4 cut(s)	34, 187, 262, 325
BstMAI	GTCTC	1 cut(s)	453
BstMBI	GATC	4 cut(s)	31, 184, 259, 322
BstMWI	GCNNNNNNNGC	3 cut(s)	471, 530, 606
BstNSI	RCATGY	1 cut(s)	423
BstUI	CGCG	1 cut(s)	37
BstV1I	GCAGC	2 cut(s)	517, 621
BstX2I	RGATCY	1 cut(s)	31
BstYI	RGATCY	1 cut(s)	31
BtgI	CCRYGG	1 cut(s)	35
BtrI	CACGTC	1 cut(s)	331
BtsCI	GGATG	4 cut(s)	132, 340, 427, 629
BtsIMutI	CAGTG	1 cut(s)	295
Cac8I	GCNNGC	2 cut(s)	23, 117
CciI	TCATGA	1 cut(s)	193
Cfr42I	CCGCGG	1 cut(s)	38
CviAII	CATG	3 cut(s)	94, 194, 420
CviJI	RGCY	7 cut(s)	42, 61, 75, 92, 524, 530, 580
CviKI_1	RGCY	7 cut(s)	42, 61, 75, 92, 524, 530, 580
DdeI	CTNAG	1 cut(s)	222
DpnI	GATC	4 cut(s)	33, 186, 261, 324
DpnII	GATC	4 cut(s)	31, 184, 259, 322
Eam1104I	CTCTTC	2 cut(s)	9, 378
EarI	CTCTTC	2 cut(s)	9, 378
Ecl136II	GAGCTC	1 cut(s)	61
Eco24I	GRGCYC	1 cut(s)	63
Eco53kI	GAGCTC	1 cut(s)	61
Eco57I	CTGAAG	1 cut(s)	566
EcoICRI	GAGCTC	1 cut(s)	61
EcoRI	GAATTC	1 cut(s)	227
EcoT38I	GRGCYC	1 cut(s)	63
FaeI	CATG	3 cut(s)	97, 197, 423
FatI	CATG	3 cut(s)	93, 193, 419
FbaI	TGATCA	1 cut(s)	184
FblI	GTMKAC	1 cut(s)	201
Fnu4HI	GCNGC	2 cut(s)	531, 610
FokI	GGATG	4 cut(s)	139, 347, 414, 616
FriOI	GRGCYC	1 cut(s)	63
Fsp4HI	GCNGC	2 cut(s)	531, 610
FspBI	CTAG	1 cut(s)	89
GluI	GCNGC	2 cut(s)	531, 610
GsaI	CCCAGC	1 cut(s)	405
Hin1II	CATG	3 cut(s)	97, 197, 423
HincII	GTYRAC	1 cut(s)	202
HindII	GTYRAC	1 cut(s)	202
HphI	GGTGA	3 cut(s)	281, 332, 530
Hpy166II	GTNNAC	2 cut(s)	202, 545
Hpy188I	TCNGA	6 cut(s)	31, 58, 79, 223, 462, 585
Hpy188III	TCNNGA	3 cut(s)	194, 239, 326
Hpy8I	GTNNAC	2 cut(s)	202, 545
Hpy99I	CGWCG	1 cut(s)	206
HpyCH4III	ACNGT	1 cut(s)	290
HpyCH4IV	ACGT	1 cut(s)	330
HpyCH4V	TGCA	4 cut(s)	103, 427, 533, 609
HpyF10VI	GCNNNNNNNGC	3 cut(s)	471, 530, 606
HpyF3I	CTNAG	1 cut(s)	222
HpySE526I	ACGT	1 cut(s)	330
Hsp92II	CATG	3 cut(s)	97, 197, 423
Ksp22I	TGATCA	1 cut(s)	184
KspI	CCGCGG	1 cut(s)	38
Kzo9I	GATC	4 cut(s)	31, 184, 259, 322
LmnI	GCTCC	1 cut(s)	39
LpnPI	CCDG	4 cut(s)	109, 311, 415, 562
Lsp1109I	GCAGC	2 cut(s)	517, 621
LweI	GCATC	3 cut(s)	117, 235, 436
MaeI	CTAG	1 cut(s)	89
MaeII	ACGT	1 cut(s)	330
MaeIII	GTNAC	2 cut(s)	269, 290
MalI	GATC	4 cut(s)	33, 186, 261, 324
MboI	GATC	4 cut(s)	31, 184, 259, 322
MfeI	CAATTG	1 cut(s)	138
MflI	RGATCY	1 cut(s)	31
MhlI	GDGCHC	2 cut(s)	63, 117
MluCI	AATT	7 cut(s)	138, 189, 227, 353, 443, 453, 642
MnlI	CCTC	6 cut(s)	217, 229, 298, 343, 386, 514
MseI	TTAA	2 cut(s)	44, 588
MslI	CAYNNNNRTG	2 cut(s)	98, 240
MspA1I	CMGCKG	1 cut(s)	37
MunI	CAATTG	1 cut(s)	138
MvnI	CGCG	1 cut(s)	37
MwoI	GCNNNNNNNGC	3 cut(s)	471, 530, 606
NdeII	GATC	4 cut(s)	31, 184, 259, 322
NlaIII	CATG	3 cut(s)	97, 197, 423
NmuCI	GTSAC	2 cut(s)	269, 290
NspI	RCATGY	1 cut(s)	423
PagI	TCATGA	1 cut(s)	193
PciI	ACATGT	1 cut(s)	419
PflMI	CCANNNNNTGG	1 cut(s)	301
PkrI	GCNGC	2 cut(s)	532, 611
PscI	ACATGT	1 cut(s)	419
Psp124BI	GAGCTC	1 cut(s)	63
PspFI	CCCAGC	1 cut(s)	401
PsuI	RGATCY	1 cut(s)	31
RseI	CAYNNNNRTG	2 cut(s)	98, 240
SacI	GAGCTC	1 cut(s)	63
SacII	CCGCGG	1 cut(s)	38
SalI	GTCGAC	1 cut(s)	200
SaqAI	TTAA	2 cut(s)	44, 588
SatI	GCNGC	2 cut(s)	531, 610
Sau3AI	GATC	4 cut(s)	31, 184, 259, 322
SduI	GDGCHC	2 cut(s)	63, 117
SetI	ASST	5 cut(s)	44, 63, 77, 333, 397
SfaNI	GCATC	3 cut(s)	117, 235, 436
Sfr303I	CCGCGG	1 cut(s)	38
SgrBI	CCGCGG	1 cut(s)	38
SmiMI	CAYNNNNRTG	2 cut(s)	98, 240
Sse9I	AATT	7 cut(s)	138, 189, 227, 353, 443, 453, 642
SsiI	CCGC	2 cut(s)	35, 37
SspMI	CTAG	1 cut(s)	89
SstI	GAGCTC	1 cut(s)	63
TaaI	ACNGT	1 cut(s)	290
TaiI	ACGT	1 cut(s)	333
TaqI	TCGA	2 cut(s)	132, 201
TasI	AATT	7 cut(s)	138, 189, 227, 353, 443, 453, 642
Tru1I	TTAA	2 cut(s)	44, 588
Tru9I	TTAA	2 cut(s)	44, 588
TscAI	CASTG	1 cut(s)	295
TseFI	GTSAC	2 cut(s)	269, 290
TseI	GCWGC	2 cut(s)	530, 609
Tsp45I	GTSAC	2 cut(s)	269, 290
TspDTI	ATGAA	8 cut(s)	73, 180, 182, 351, 364, 423, 525, 612
TspRI	CASTG	1 cut(s)	295
Van91I	CCANNNNNTGG	1 cut(s)	301
XapI	RAATTY	2 cut(s)	189, 227
XceI	RCATGY	1 cut(s)	423
XmiI	GTMKAC	1 cut(s)	201
XspI	CTAG	1 cut(s)	89

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