Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0001134

Physical Location & Seq

Genomic Coordinates Reverse (-)

41866178 .. 41869566

Gene Structure 3389 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG195800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGGAAGCCGAGAAGGCAGTGAAACGGAAAACCCAAAACAAAATTCCAAGAACTGTTTTCAGAGCATGCAATTAATTTTAAACAAAGACACCTTAATAATGGATTGTATTTTGAAGATAATGAATCAGCTTCTTAGCTTGAGCATAGGAGGATCGAGTTACTTTCAACAAGTGAATGAGAGTGAGGCTGAAAGAGCGAGAAAATTAGCAAGGTTAGTAGATTTGGACCTTAACCATCCACCTCCTAGTGAGAACGTGGCTCTAGCTGCTCCTTCGAGTGTCCAACCTCAACAACAATCTTCGGACGCTCCTGATGATGAATGTCTAATCATATCACCACGGAAGTTTGAAGAGGCCATGAATAATTCTCAGAGAAATCAGTCTCGCAGAGTAAGAAGCAATATAGAAGATTTTACTGAAGTTGGTGTTGCACAATCGTTTGATATCTTATCAACAGACTTGATAACATGGGGGATCTCCTTCGGCCGACTTGGAACCGTCAACGGAGTGATTTCCTTGAACGATGAAGTTCTTAACAAAACCAAAGATACTGAAACCAGTATCCCCATGGCTCCAATAGAGCCCCAGTGTGAGCCCGATGCACCTGTGTTTTCTTGTGTAATCTGCATGGGCCAATTGATTGAAGAAACATCAACGAAGTGCGGCCACATCTTCTGCAAGATGTGTATTGAAAAAGCAATAGCTACTCAACACAAATGCCCTAACTGCAGGCGTAAACTTAGAAAGCGAGACATCTTCAGGGTCCACCTTCCATACAACAGTTAA

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-C3HC4_2

Protein Analysis

261

Amino Acids

29.19

Weight (kDa)

5.68

Isoelectric Point (pI)

67.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	205 - 244	7.5e-09	Ring finger domain
zf-C3HC4_3	PF13920	205 - 249	3.3e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	206 - 243	5.6e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	206 - 243	7.2e-08	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001134)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G07200 AT3G07200 AT3G07200 AT5G48655 AT5G48655 AT5G48655 AT5G48655 AT5G48655 AT5G48655
fragaria_vesca	FvH4_2g18620 FvH4_2g18620 FvH4_2g18620 FvH4_2g18620 FvH4_4g13470 FvH4_4g13470 FvH4_4g13470 FvH4_4g13470 FvH4_4g13481
malus_domestica	MD04G1013800.v1.1 MD04G1014000.v1.1 MD05G1172100.v1.1
prunus_persica	Prupe.1G160800_v2.0.a1 Prupe.1G161000_v2.0.a1 Prupe.1G161000_v2.0.a1 Prupe.8G199600_v2.0.a1 Prupe.8G199600_v2.0.a1
pyrus_communis	pycom05g15880
rosa_chinensis	RchiOBHm_Chr4g0414081 RchiOBHm_Chr4g0414101 RchiOBHm_Chr6g0284181
rosa_laevigata	RLG00000008177 RLG00000008179 RLG00000012760
rosa_multiflora	Rmu_sc0003264.1_g000011 Rmu_sc0006428.1_g000005
rosa_roxburghii	Rroxscaffold_5G00358010 Rroxscaffold_5G00358030 Rroxscaffold_7G00184810
rosa_rugosa	Rorug04G0125200 Rorug04G0125400 Rorug04G0125500 Rorug06G0161700 Rorug06G0161700
rosa_samantha	Rh4AG183900 Rh4AG184100 Rh4BG183400 Rh4BG183600 Rh4CG195800 Rh4CG196000 Rh4DG179300 Rh4DG179500 Rh6AG274500 Rh6BG274900 Rh6CG276700 Rh6DG269300
rosa_wichuraiana	Rw4G015650 Rw4G015670 Rw6G023610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	663
AclWI	GGATC	2 cut(s)	160, 482
AcoI	YGGCCR	2 cut(s)	484, 664
AcsI	RAATTY	1 cut(s)	43
AcuI	CTGAAG	2 cut(s)	438, 742
AgsI	TTSAA	6 cut(s)	115, 167, 350, 520, 644, 692
AjuI	GAANNNNNNNTTGG	2 cut(s)	28, 60
AluBI	AGCT	4 cut(s)	130, 138, 266, 704
AluI	AGCT	4 cut(s)	130, 138, 266, 704
Alw26I	GTCTC	2 cut(s)	387, 744
AlwI	GGATC	2 cut(s)	160, 482
AoxI	GGCC	4 cut(s)	354, 484, 631, 664
ApeKI	GCWGC	1 cut(s)	266
ApoI	RAATTY	1 cut(s)	43
AseI	ATTAAT	1 cut(s)	74
AspS9I	GGNCC	3 cut(s)	226, 631, 763
AsuHPI	GGTGA	1 cut(s)	327
AvaII	GGWCC	2 cut(s)	226, 763
BanII	GRGCYC	2 cut(s)	585, 597
BbvI	GCAGC	1 cut(s)	253
BccI	CCATC	1 cut(s)	243
BciVI	GTATCC	1 cut(s)	572
BcoDI	GTCTC	2 cut(s)	387, 744
BfaI	CTAG	2 cut(s)	246, 263
BfmI	CTRYAG	1 cut(s)	727
BfuI	GTATCC	1 cut(s)	572
BglI	GCCNNNNNGGC	1 cut(s)	15
BisI	GCNGC	2 cut(s)	267, 664
BlsI	GCNGC	2 cut(s)	268, 665
Bme18I	GGWCC	2 cut(s)	226, 763
BmgT120I	GGNCC	3 cut(s)	226, 631, 763
BmiI	GGNNCC	3 cut(s)	496, 573, 764
BmrI	ACTGGG	1 cut(s)	580
BmsI	GCATC	1 cut(s)	589
BmuI	ACTGGG	1 cut(s)	580
BpuEI	CTTGAG	1 cut(s)	160
BsaJI	CCNNGG	2 cut(s)	338, 567
Bse1I	ACTGG	2 cut(s)	558, 586
BseDI	CCNNGG	2 cut(s)	338, 567
BseGI	GGATG	1 cut(s)	235
BseMII	CTCAG	1 cut(s)	383
BseNI	ACTGG	2 cut(s)	558, 586
BseX3I	CGGCCG	1 cut(s)	484
BseXI	GCAGC	1 cut(s)	253
Bsh1285I	CGRYCG	1 cut(s)	487
BshFI	GGCC	4 cut(s)	356, 486, 633, 666
BsiEI	CGRYCG	1 cut(s)	487
BsmAI	GTCTC	2 cut(s)	387, 744
BsnI	GGCC	4 cut(s)	356, 486, 633, 666
Bsp1286I	GDGCHC	2 cut(s)	585, 597
Bsp143I	GATC	2 cut(s)	152, 474
Bsp19I	CCATGG	1 cut(s)	567
BspACI	CCGC	1 cut(s)	663
BspANI	GGCC	4 cut(s)	356, 486, 633, 666
BspCNI	CTCAG	1 cut(s)	382
BspLI	GGNNCC	3 cut(s)	496, 573, 764
BspMAI	CTGCAG	1 cut(s)	731
BspPI	GGATC	2 cut(s)	160, 482
BsrI	ACTGG	2 cut(s)	558, 586
BssECI	CCNNGG	2 cut(s)	338, 567
BssMI	GATC	2 cut(s)	152, 474
BssT1I	CCWWGG	1 cut(s)	567
Bst4CI	ACNGT	3 cut(s)	56, 499, 782
Bst6I	CTCTTC	1 cut(s)	345
BstC8I	GCNNGC	2 cut(s)	68, 731
BstDEI	CTNAG	3 cut(s)	134, 369, 740
BstDSI	CCRYGG	2 cut(s)	338, 567
BstF5I	GGATG	1 cut(s)	235
BstKTI	GATC	2 cut(s)	155, 477
BstMAI	GTCTC	2 cut(s)	387, 744
BstMBI	GATC	2 cut(s)	152, 474
BstMCI	CGRYCG	1 cut(s)	487
BstMWI	GCNNNNNNNGC	4 cut(s)	15, 194, 266, 726
BstNSI	RCATGY	1 cut(s)	70
BstSFI	CTRYAG	1 cut(s)	727
BstV1I	GCAGC	1 cut(s)	253
BstX2I	RGATCY	1 cut(s)	474
BstYI	RGATCY	1 cut(s)	474
BstZI	CGGCCG	1 cut(s)	484
BsuI	GTATCC	1 cut(s)	572
BsuRI	GGCC	4 cut(s)	356, 486, 633, 666
BtgI	CCRYGG	2 cut(s)	338, 567
BtsCI	GGATG	1 cut(s)	235
BtsI	GCAGTG	1 cut(s)	25
BtsIMutI	CAGTG	2 cut(s)	25, 593
Cac8I	GCNNGC	2 cut(s)	68, 731
Cfr13I	GGNCC	3 cut(s)	226, 631, 763
CseI	GACGC	1 cut(s)	314
CviAII	CATG	5 cut(s)	67, 358, 468, 568, 628
DdeI	CTNAG	3 cut(s)	134, 369, 740
DpnI	GATC	2 cut(s)	154, 476
DpnII	GATC	2 cut(s)	152, 474
DraI	TTTAAA	1 cut(s)	81
EaeI	YGGCCR	2 cut(s)	484, 664
EagI	CGGCCG	1 cut(s)	484
Eam1104I	CTCTTC	1 cut(s)	345
EarI	CTCTTC	1 cut(s)	345
EclXI	CGGCCG	1 cut(s)	484
Eco130I	CCWWGG	1 cut(s)	567
Eco24I	GRGCYC	2 cut(s)	585, 597
Eco32I	GATATC	1 cut(s)	445
Eco47I	GGWCC	2 cut(s)	226, 763
Eco52I	CGGCCG	1 cut(s)	484
Eco57I	CTGAAG	2 cut(s)	438, 742
EcoRV	GATATC	1 cut(s)	445
EcoT14I	CCWWGG	1 cut(s)	567
EcoT38I	GRGCYC	2 cut(s)	585, 597
ErhI	CCWWGG	1 cut(s)	567
FaeI	CATG	5 cut(s)	70, 361, 471, 571, 631
FaiI	YATR	9 cut(s)	68, 146, 332, 359, 404, 469, 569, 629, 775
FatI	CATG	5 cut(s)	66, 357, 467, 567, 627
Fnu4HI	GCNGC	2 cut(s)	267, 664
FokI	GGATG	1 cut(s)	222
FriOI	GRGCYC	2 cut(s)	585, 597
Fsp4HI	GCNGC	2 cut(s)	267, 664
FspBI	CTAG	2 cut(s)	246, 263
GluI	GCNGC	2 cut(s)	267, 664
HaeIII	GGCC	4 cut(s)	356, 486, 633, 666
HgaI	GACGC	1 cut(s)	314
Hin1II	CATG	5 cut(s)	70, 361, 471, 571, 631
HincII	GTYRAC	1 cut(s)	502
HindII	GTYRAC	1 cut(s)	502
HinfI	GANTC	1 cut(s)	124
HphI	GGTGA	1 cut(s)	327
Hpy166II	GTNNAC	3 cut(s)	502, 737, 766
Hpy188I	TCNGA	3 cut(s)	63, 304, 372
Hpy188III	TCNNGA	1 cut(s)	311
Hpy8I	GTNNAC	3 cut(s)	502, 737, 766
HpyAV	CCTTC	4 cut(s)	8, 282, 490, 779
HpyCH4III	ACNGT	3 cut(s)	56, 499, 782
HpyCH4IV	ACGT	1 cut(s)	255
HpyCH4V	TGCA	6 cut(s)	70, 431, 602, 627, 678, 729
HpyF10VI	GCNNNNNNNGC	4 cut(s)	15, 194, 266, 726
HpyF3I	CTNAG	3 cut(s)	134, 369, 740
HpySE526I	ACGT	1 cut(s)	255
Hsp92II	CATG	5 cut(s)	70, 361, 471, 571, 631
Kzo9I	GATC	2 cut(s)	152, 474
LmnI	GCTCC	3 cut(s)	274, 313, 577
LpnPI	CCDG	6 cut(s)	324, 571, 599, 618, 715, 745
Lsp1109I	GCAGC	1 cut(s)	253
LweI	GCATC	1 cut(s)	589
MaeI	CTAG	2 cut(s)	246, 263
MaeII	ACGT	1 cut(s)	255
MaeIII	GTNAC	1 cut(s)	158
MalI	GATC	2 cut(s)	154, 476
MboI	GATC	2 cut(s)	152, 474
MboII	GAAGA	7 cut(s)	127, 291, 362, 419, 656, 664, 748
MfeI	CAATTG	1 cut(s)	635
MflI	RGATCY	1 cut(s)	474
MhlI	GDGCHC	2 cut(s)	585, 597
MluCI	AATT	6 cut(s)	43, 71, 75, 203, 364, 635
MmeI	TCCRAC	1 cut(s)	307
MnlI	CCTC	5 cut(s)	143, 178, 252, 297, 346
MseI	TTAA	6 cut(s)	74, 80, 95, 231, 534, 784
MunI	CAATTG	1 cut(s)	635
MwoI	GCNNNNNNNGC	4 cut(s)	15, 194, 266, 726
NcoI	CCATGG	1 cut(s)	567
NdeII	GATC	2 cut(s)	152, 474
NlaIII	CATG	5 cut(s)	70, 361, 471, 571, 631
NlaIV	GGNNCC	3 cut(s)	496, 573, 764
NmeAIII	GCCGAG	1 cut(s)	35
NspI	RCATGY	1 cut(s)	70
PaeI	GCATGC	1 cut(s)	70
PfeI	GAWTC	1 cut(s)	124
PkrI	GCNGC	2 cut(s)	268, 665
PshBI	ATTAAT	1 cut(s)	74
PspN4I	GGNNCC	3 cut(s)	496, 573, 764
PspPI	GGNCC	3 cut(s)	226, 631, 763
PstI	CTGCAG	1 cut(s)	731
PsuI	RGATCY	1 cut(s)	474
SaqAI	TTAA	6 cut(s)	74, 80, 95, 231, 534, 784
SatI	GCNGC	2 cut(s)	267, 664
Sau3AI	GATC	2 cut(s)	152, 474
Sau96I	GGNCC	3 cut(s)	226, 631, 763
SduI	GDGCHC	2 cut(s)	585, 597
SfaNI	GCATC	1 cut(s)	589
SfcI	CTRYAG	1 cut(s)	727
SinI	GGWCC	2 cut(s)	226, 763
SmlI	CTYRAG	1 cut(s)	139
SmoI	CTYRAG	1 cut(s)	139
SphI	GCATGC	1 cut(s)	70
Sse9I	AATT	6 cut(s)	43, 71, 75, 203, 364, 635
SsiI	CCGC	1 cut(s)	663
SspMI	CTAG	2 cut(s)	246, 263
StyI	CCWWGG	1 cut(s)	567
TaaI	ACNGT	3 cut(s)	56, 499, 782
TaiI	ACGT	1 cut(s)	258
TaqI	TCGA	2 cut(s)	155, 275
TasI	AATT	6 cut(s)	43, 71, 75, 203, 364, 635
TauI	GCSGC	1 cut(s)	666
TfiI	GAWTC	1 cut(s)	124
Tru1I	TTAA	6 cut(s)	74, 80, 95, 231, 534, 784
Tru9I	TTAA	6 cut(s)	74, 80, 95, 231, 534, 784
TscAI	CASTG	2 cut(s)	25, 593
TseI	GCWGC	1 cut(s)	266
TspDTI	ATGAA	4 cut(s)	137, 333, 374, 540
TspGWI	ACGGA	3 cut(s)	41, 355, 519
TspRI	CASTG	2 cut(s)	25, 593
VpaK11BI	GGWCC	2 cut(s)	226, 763
VspI	ATTAAT	1 cut(s)	74
XapI	RAATTY	1 cut(s)	43
XceI	RCATGY	1 cut(s)	70
XcmI	CCANNNNNNNNNTGG	1 cut(s)	565
XspI	CTAG	2 cut(s)	246, 263

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