Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0001134

Physical Location & Seq

Genomic Coordinates Reverse (-)

45753998 .. 45756900

Gene Structure 2903 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG183900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 786 bp

ATGGGAAGCCGAGAAGGCAGTGAAACGGAAAACCCAAAACAAAATTCCAAGAACTGTTTTCAGAGCATGCAATTAATTTTAAACAAAGACACCTTAATAATGGATTGTATTTTGAAGATAATGAATCAGCTTCTTAGCTTGAGCATTGGAGGATCGAGTTACTTTCAACAAGTGAATGAGAGTGAGGCTGAAAGAGCGAGAAAATTAGCAAGGTTAGTAGATTTGGACCTTAACCATCCACCTCCTAGTGAGAACGTGGCTCTAGCTGCTCCTTCGAGTGTCCAACCTCAACAACAATCTTCGGACGCTCCTGATGATGAATGTCTAATCATATCACCACGGAAGTTTGAAGAGGCCATGAATAATTCTCAGAGAAATCAGTCTCGCAGAGTAAGAAGCAATATAGAAGATTTTACTGAAGTTGGTGTTGCACAATCGTTTGATATCTTATCAACAGACTTGATAACATGGGGGATCTCCTTCGGCCGACTTGGAACTGTCAACGGAGTGATTTCCTTGAACGATGAAGTTCTTAACAAAACCATAGATACTGAAACCAGTATCCCCATGGCTCCAATAGAGCCTCAGTGTGAGCCCAATGCACCTGTGTTTTCTTGTGTAATCTGCATGGGCCAATTGATTGAAGAAACATCAACGAAGTGCGGCCACATCTTCTGCAAGATGTGTATTGAAAAAGCAATAGCTACTCAACACAAATGCCCTAACTGCAGGCGTAAACTTAGAAAGCGAGACATCTTCAGGGTCCACCTTCCATACACCAGTTAA

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

29.16

Weight (kDa)

5.68

Isoelectric Point (pI)

67.68

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

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Publication-ready

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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	1 cut(s)	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	2 cut(s)	573, 764
BpuEI	CTTGAG	1 cut(s)	160
BsaJI	CCNNGG	2 cut(s)	338, 567
Bse1I	ACTGG	2 cut(s)	558, 780
BseDI	CCNNGG	2 cut(s)	338, 567
BseGI	GGATG	1 cut(s)	235
BseMII	CTCAG	2 cut(s)	383, 599
BseNI	ACTGG	2 cut(s)	558, 780
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	1 cut(s)	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	2 cut(s)	382, 598
BspLI	GGNNCC	2 cut(s)	573, 764
BspMAI	CTGCAG	1 cut(s)	731
BspPI	GGATC	2 cut(s)	160, 482
BsrI	ACTGG	2 cut(s)	558, 780
BssECI	CCNNGG	2 cut(s)	338, 567
BssMI	GATC	2 cut(s)	152, 474
BssT1I	CCWWGG	1 cut(s)	567
Bst4CI	ACNGT	2 cut(s)	56, 499
Bst6I	CTCTTC	1 cut(s)	345
BstC8I	GCNNGC	2 cut(s)	68, 731
BstDEI	CTNAG	4 cut(s)	134, 369, 585, 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	4 cut(s)	134, 369, 585, 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	1 cut(s)	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	1 cut(s)	597
ErhI	CCWWGG	1 cut(s)	567
FaeI	CATG	5 cut(s)	70, 361, 471, 571, 631
FaiI	YATR	9 cut(s)	68, 332, 359, 404, 469, 545, 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	1 cut(s)	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	2 cut(s)	56, 499
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	4 cut(s)	134, 369, 585, 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	5 cut(s)	324, 571, 618, 715, 745
Lsp1109I	GCAGC	1 cut(s)	253
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	1 cut(s)	597
MluCI	AATT	6 cut(s)	43, 71, 75, 203, 364, 635
MmeI	TCCRAC	1 cut(s)	307
MnlI	CCTC	6 cut(s)	143, 178, 252, 297, 346, 594
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	2 cut(s)	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	2 cut(s)	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	1 cut(s)	597
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	2 cut(s)	56, 499
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.