Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0013651

Physical Location & Seq

Genomic Coordinates Forward (+)

6018538 .. 6022962

Gene Structure 4425 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG029800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 993 bp

ATGATGACGACTAGCAGCAACCAAGTTGTGAAAGTTAAGAGGGAGAAGCTCGAGGCATGCATGACATGCCCCATGTGCAAAGAGCTATTCGAAGAAGCCACAACTATTTCTGAATGTCTTCACACATTTTGCAAGAAGTGCATATATGATAAAATAATCAATGAAGATTTGGATAGATGTCCAGTATGCAAGACAGATTTAGGGGTTGCTCCAATGGATAAGCTCAGGGCTGACAATAGTCTAGAAGACATAAGGGCGAAGCTCTTCCCTTCTGGAAGTAAAAAGGTCAAGGCACAAGCAGCGGACCGCAATCTGCAAGTTGCAGGCTCTGAAATGGTCTTGCCTTCAGAAACAAGAAAAACCAAGGCACCTGAAGTTAATGTGCCCTCCATATTGTTACCAGGGAGAAGAAAGCAGAGATACCTCTCTTCATTAGGAACAAGCGCTCCTACAGTTACAACCAGGTCCTCTATGAGGTATTTTACCAGAAAGAGTTCAGCTCTTCAAGAGAGTCATCTTTCGACTCTAGAAGAGCCTGTTCACAAACATGAAGATTTTCCGGAGAGGGTTAAATCATCTGAGAACCTTAAAGAAGATGCAGCACATGCCAGACAGAATGCTACTGAGAAATTGTCTCAGAAAGATGGGGAGAATAATGGCAACGAGAACAAAGCACAACCAAGGTGGACAACTGGGCTGATGGAAGCTGAAAGAGAAGCTGCAAGAGTCCCAATAAGGCAAGTGTTCCTCAACCTCAACAATGAACCAGAAGAGCTTCAACCCATTCAGGAACATGGCAATAATGGTGAATCTACTCCTGCACCATCAGTTTCAGTGCCAAGTGCCAAAGGCCAACGTGGCCGCAAGAGAAAAGCAGTATCAGAACCCGAGGAGTTAAAAACTCCAGCACAACCTGTGGTATCTGACGCAAACAATGAAGGTGAAACATCATTTAAACCAATCTGGTTCTCGTTGGAAGCTTATCCATGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009414 GO:0009415 GO:0009628 GO:0009987 GO:0010035 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0042221 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0050896 GO:0051865 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4_2

Protein Analysis

330

Amino Acids

36.89

Weight (kDa)

8.04

Isoelectric Point (pI)

52.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	23 - 63	1.3e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	23 - 60	3.4e-07	RING-type zinc-finger
zf-C3HC4	PF00097	23 - 63	4.2e-07	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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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013651)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g02340 FvH4_4g02340
malus_domestica	MD13G1205400.v1.1 MD16G1207100.v1.1
prunus_persica	Prupe.1G028000_v2.0.a1 Prupe.1G028000_v2.0.a1 Prupe.1G028000_v2.0.a1 Prupe.1G028000_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0389721
rosa_laevigata	RLG00000009960
rosa_multiflora	Rmu_sc0003144.1_g000010
rosa_roxburghii	Rroxscaffold_5G00335720
rosa_rugosa	Rorug03G0324900
rosa_samantha	Rh4AG029800 Rh4BG022900 Rh4CG031600 Rh4DG023200
rosa_wichuraiana	Rw4G002230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	367
AccIII	TCCGGA	1 cut(s)	559
AciI	CCGC	3 cut(s)	302, 307, 862
AcoI	YGGCCR	1 cut(s)	859
AcuI	CTGAAG	2 cut(s)	330, 393
AfeI	AGCGCT	1 cut(s)	445
AfiI	CCNNNNNNNGG	1 cut(s)	474
AgsI	TTSAA	2 cut(s)	506, 779
AjnI	CCWGG	2 cut(s)	400, 461
AloI	GAACNNNNNNTCC	2 cut(s)	430, 462
AluBI	AGCT	9 cut(s)	49, 85, 223, 262, 500, 707, 719, 775, 980
AluI	AGCT	9 cut(s)	49, 85, 223, 262, 500, 707, 719, 775, 980
Alw26I	GTCTC	1 cut(s)	639
AlwNI	CAGNNNCTG	1 cut(s)	329
Ama87I	CYCGRG	2 cut(s)	50, 887
Aor13HI	TCCGGA	1 cut(s)	559
Aor51HI	AGCGCT	1 cut(s)	445
AoxI	GGCC	2 cut(s)	850, 859
ApeKI	GCWGC	4 cut(s)	15, 299, 599, 719
Asp700I	GAANNNNTTC	5 cut(s)	117, 263, 493, 555, 774
AspLEI	GCGC	1 cut(s)	446
AspS9I	GGNCC	2 cut(s)	304, 465
AsuHPI	GGTGA	2 cut(s)	818, 953
AsuII	TTCGAA	1 cut(s)	90
AvaI	CYCGRG	2 cut(s)	50, 887
AvaII	GGWCC	2 cut(s)	304, 465
BaeGI	GKGCMC	1 cut(s)	387
BanI	GGYRCC	1 cut(s)	367
BbsI	GAAGAC	2 cut(s)	110, 252
BbvI	GCAGC	4 cut(s)	27, 311, 611, 706
BccI	CCATC	3 cut(s)	638, 694, 832
BciT130I	CCWGG	2 cut(s)	402, 463
BcoDI	GTCTC	1 cut(s)	639
BfaI	CTAG	3 cut(s)	12, 242, 527
BfmI	CTRYAG	1 cut(s)	450
BfoI	RGCGCY	1 cut(s)	447
BglI	GCCNNNNNGGC	1 cut(s)	858
BisI	GCNGC	5 cut(s)	16, 300, 600, 720, 862
BlsI	GCNGC	5 cut(s)	17, 301, 601, 721, 863
Bme1390I	CCNGG	2 cut(s)	402, 463
Bme18I	GGWCC	2 cut(s)	304, 465
BmeT110I	CYCGRG	2 cut(s)	50, 887
BmgT120I	GGNCC	2 cut(s)	304, 465
BmiI	GGNNCC	1 cut(s)	369
BmrFI	CCNGG	2 cut(s)	402, 463
BmrI	ACTGGG	1 cut(s)	702
BmsI	GCATC	1 cut(s)	586
BmuI	ACTGGG	1 cut(s)	702
BoxI	GACNNNNGTC	1 cut(s)	237
BpiI	GAAGAC	2 cut(s)	110, 252
BplI	GAGNNNNNCTC	2 cut(s)	484, 516
BpmI	CTGGAG	1 cut(s)	888
Bpu10I	CCTNAGC	1 cut(s)	224
Bpu14I	TTCGAA	1 cut(s)	90
BsaJI	CCNNGG	5 cut(s)	363, 401, 680, 888, 986
BsaWI	WCCGGW	1 cut(s)	559
BsaXI	ACNNNNNCTCC	2 cut(s)	430, 460
Bsc4I	CCNNNNNNNGG	1 cut(s)	474
Bse1I	ACTGG	2 cut(s)	182, 697
BseAI	TCCGGA	1 cut(s)	559
BseBI	CCWGG	2 cut(s)	402, 463
BseDI	CCNNGG	5 cut(s)	363, 401, 680, 888, 986
BseLI	CCNNNNNNNGG	1 cut(s)	474
BseMII	CTCAG	4 cut(s)	238, 570, 615, 650
BseNI	ACTGG	2 cut(s)	182, 697
BseRI	GAGGAG	1 cut(s)	905
BseSI	GKGCMC	1 cut(s)	387
BseXI	GCAGC	4 cut(s)	27, 311, 611, 706
BsgI	GTGCAG	1 cut(s)	804
BshFI	GGCC	2 cut(s)	852, 861
BshNI	GGYRCC	1 cut(s)	367
BsiHKCI	CYCGRG	2 cut(s)	50, 887
BsiSI	CCGG	1 cut(s)	560
BslFI	GGGAC	1 cut(s)	713
BslI	CCNNNNNNNGG	1 cut(s)	474
BsmAI	GTCTC	1 cut(s)	639
BsmFI	GGGAC	1 cut(s)	713
BsmI	GAATGC	1 cut(s)	622
BsnI	GGCC	2 cut(s)	852, 861
BsoBI	CYCGRG	2 cut(s)	50, 887
Bsp119I	TTCGAA	1 cut(s)	90
Bsp1286I	GDGCHC	1 cut(s)	387
Bsp13I	TCCGGA	1 cut(s)	559
Bsp19I	CCATGG	1 cut(s)	986
BspACI	CCGC	3 cut(s)	302, 307, 862
BspANI	GGCC	2 cut(s)	852, 861
BspCNI	CTCAG	4 cut(s)	237, 571, 616, 649
BspEI	TCCGGA	1 cut(s)	559
BspLI	GGNNCC	1 cut(s)	369
BspQI	GCTCTTC	4 cut(s)	269, 507, 525, 765
BspT104I	TTCGAA	1 cut(s)	90
BspT107I	GGYRCC	1 cut(s)	367
BsrI	ACTGG	2 cut(s)	182, 697
BssECI	CCNNGG	5 cut(s)	363, 401, 680, 888, 986
BssT1I	CCWWGG	3 cut(s)	363, 680, 986
Bst2UI	CCWGG	2 cut(s)	402, 463
Bst4CI	ACNGT	1 cut(s)	454
Bst6I	CTCTTC	5 cut(s)	269, 433, 507, 525, 765
BstAPI	GCANNNNNTGC	3 cut(s)	66, 138, 605
BstBI	TTCGAA	1 cut(s)	90
BstC8I	GCNNGC	2 cut(s)	58, 325
BstDEI	CTNAG	4 cut(s)	224, 579, 624, 636
BstDSI	CCRYGG	1 cut(s)	986
BstENI	CCTNNNNNAGG	1 cut(s)	472
BstH2I	RGCGCY	1 cut(s)	447
BstHHI	GCGC	1 cut(s)	446
BstMAI	GTCTC	1 cut(s)	639
BstMWI	GCNNNNNNNGC	6 cut(s)	66, 75, 138, 299, 605, 858
BstNI	CCWGG	2 cut(s)	402, 463
BstNSI	RCATGY	3 cut(s)	60, 69, 608
BstPAI	GACNNNNGTC	1 cut(s)	237
BstSCI	CCNGG	2 cut(s)	400, 461
BstSFI	CTRYAG	1 cut(s)	450
BstSLI	GKGCMC	1 cut(s)	387
BstV1I	GCAGC	4 cut(s)	27, 311, 611, 706
BstV2I	GAAGAC	2 cut(s)	110, 252
BsuRI	GGCC	2 cut(s)	852, 861
BtgI	CCRYGG	1 cut(s)	986
BtsIMutI	CAGTG	1 cut(s)	840
Cac8I	GCNNGC	2 cut(s)	58, 325
CaiI	CAGNNNCTG	1 cut(s)	329
CfoI	GCGC	1 cut(s)	446
Cfr13I	GGNCC	2 cut(s)	304, 465
CpoI	CGGWCCG	1 cut(s)	304
CseI	GACGC	1 cut(s)	935
CsiI	ACCWGGT	1 cut(s)	461
CspCI	CAANNNNNGTGG	2 cut(s)	665, 700
CspI	CGGWCCG	1 cut(s)	304
CviAII	CATG	8 cut(s)	57, 61, 66, 73, 548, 605, 794, 987
DdeI	CTNAG	4 cut(s)	224, 579, 624, 636
DraI	TTTAAA	1 cut(s)	955
EaeI	YGGCCR	1 cut(s)	859
Eam1104I	CTCTTC	5 cut(s)	269, 433, 507, 525, 765
EarI	CTCTTC	5 cut(s)	269, 433, 507, 525, 765
Eco130I	CCWWGG	3 cut(s)	363, 680, 986
Eco47I	GGWCC	2 cut(s)	304, 465
Eco47III	AGCGCT	1 cut(s)	445
Eco57I	CTGAAG	2 cut(s)	330, 393
Eco88I	CYCGRG	2 cut(s)	50, 887
EcoNI	CCTNNNNNAGG	1 cut(s)	472
EcoO109I	RGGNCCY	1 cut(s)	465
EcoRII	CCWGG	2 cut(s)	400, 461
EcoT14I	CCWWGG	3 cut(s)	363, 680, 986
EcoT22I	ATGCAT	1 cut(s)	62
ErhI	CCWWGG	3 cut(s)	363, 680, 986
FaeI	CATG	8 cut(s)	60, 64, 69, 76, 551, 608, 797, 990
FaqI	GGGAC	1 cut(s)	713
FatI	CATG	8 cut(s)	56, 60, 65, 72, 547, 604, 793, 986
Fnu4HI	GCNGC	5 cut(s)	16, 300, 600, 720, 862
Fsp4HI	GCNGC	5 cut(s)	16, 300, 600, 720, 862
FspBI	CTAG	3 cut(s)	12, 242, 527
GlaI	GCGC	1 cut(s)	445
GluI	GCNGC	5 cut(s)	16, 300, 600, 720, 862
GsuI	CTGGAG	1 cut(s)	888
HaeII	RGCGCY	1 cut(s)	447
HaeIII	GGCC	2 cut(s)	852, 861
HapII	CCGG	1 cut(s)	560
HgaI	GACGC	1 cut(s)	935
HhaI	GCGC	1 cut(s)	446
Hin1II	CATG	8 cut(s)	60, 64, 69, 76, 551, 608, 797, 990
Hin6I	GCGC	1 cut(s)	444
HinP1I	GCGC	1 cut(s)	444
HindIII	AAGCTT	1 cut(s)	978
HinfI	GANTC	4 cut(s)	511, 523, 726, 809
HpaII	CCGG	1 cut(s)	560
HphI	GGTGA	2 cut(s)	818, 953
Hpy166II	GTNNAC	2 cut(s)	541, 687
Hpy188I	TCNGA	7 cut(s)	112, 331, 349, 580, 639, 883, 925
Hpy188III	TCNNGA	6 cut(s)	242, 273, 506, 527, 560, 788
Hpy8I	GTNNAC	2 cut(s)	541, 687
HpyAV	CCTTC	3 cut(s)	279, 354, 932
HpyCH4III	ACNGT	1 cut(s)	454
HpyCH4IV	ACGT	1 cut(s)	856
HpyF10VI	GCNNNNNNNGC	6 cut(s)	66, 75, 138, 299, 605, 858
HpyF3I	CTNAG	4 cut(s)	224, 579, 624, 636
HpySE526I	ACGT	1 cut(s)	856
Hsp92II	CATG	8 cut(s)	60, 64, 69, 76, 551, 608, 797, 990
HspAI	GCGC	1 cut(s)	444
Kpn2I	TCCGGA	1 cut(s)	559
LguI	GCTCTTC	4 cut(s)	269, 507, 525, 765
LmnI	GCTCC	2 cut(s)	214, 451
Lsp1109I	GCAGC	4 cut(s)	27, 311, 611, 706
LweI	GCATC	1 cut(s)	586
MabI	ACCWGGT	1 cut(s)	461
MaeI	CTAG	3 cut(s)	12, 242, 527
MaeII	ACGT	1 cut(s)	856
MaeIII	GTNAC	2 cut(s)	396, 454
MhlI	GDGCHC	1 cut(s)	387
MluCI	AATT	1 cut(s)	629
MlyI	GAGTC	3 cut(s)	517, 520, 735
MmeI	TCCRAC	1 cut(s)	954
Mph1103I	ATGCAT	1 cut(s)	62
MroI	TCCGGA	1 cut(s)	559
MroXI	GAANNNNTTC	5 cut(s)	117, 263, 493, 555, 774
MseI	TTAA	6 cut(s)	36, 378, 570, 588, 896, 954
MslI	CAYNNNNRTG	1 cut(s)	546
MspA1I	CMGCKG	1 cut(s)	302
MspI	CCGG	1 cut(s)	560
MspR9I	CCNGG	2 cut(s)	402, 463
Mva1269I	GAATGC	1 cut(s)	622
MvaI	CCWGG	2 cut(s)	402, 463
MwoI	GCNNNNNNNGC	6 cut(s)	66, 75, 138, 299, 605, 858
NcoI	CCATGG	1 cut(s)	986
NlaIII	CATG	8 cut(s)	60, 64, 69, 76, 551, 608, 797, 990
NlaIV	GGNNCC	1 cut(s)	369
NsiI	ATGCAT	1 cut(s)	62
NspI	RCATGY	3 cut(s)	60, 69, 608
NspV	TTCGAA	1 cut(s)	90
PaeI	GCATGC	1 cut(s)	60
PaeR7I	CTCGAG	1 cut(s)	50
PciSI	GCTCTTC	4 cut(s)	269, 507, 525, 765
PctI	GAATGC	1 cut(s)	622
PdmI	GAANNNNTTC	5 cut(s)	117, 263, 493, 555, 774
PfeI	GAWTC	1 cut(s)	809
PkrI	GCNGC	5 cut(s)	17, 301, 601, 721, 863
PleI	GAGTC	3 cut(s)	517, 519, 734
PpsI	GAGTC	3 cut(s)	517, 519, 734
PpuMI	RGGWCCY	1 cut(s)	465
PshAI	GACNNNNGTC	1 cut(s)	237
Psp5II	RGGWCCY	1 cut(s)	465
Psp6I	CCWGG	2 cut(s)	400, 461
PspGI	CCWGG	2 cut(s)	400, 461
PspN4I	GGNNCC	1 cut(s)	369
PspPI	GGNCC	2 cut(s)	304, 465
PspPPI	RGGWCCY	1 cut(s)	465
PspXI	VCTCGAGB	1 cut(s)	50
PstNI	CAGNNNCTG	1 cut(s)	329
RseI	CAYNNNNRTG	1 cut(s)	546
Rsr2I	CGGWCCG	1 cut(s)	304
RsrII	CGGWCCG	1 cut(s)	304
SapI	GCTCTTC	4 cut(s)	269, 507, 525, 765
SaqAI	TTAA	6 cut(s)	36, 378, 570, 588, 896, 954
SatI	GCNGC	5 cut(s)	16, 300, 600, 720, 862
Sau96I	GGNCC	2 cut(s)	304, 465
SchI	GAGTC	3 cut(s)	517, 520, 735
ScrFI	CCNGG	2 cut(s)	402, 463
SduI	GDGCHC	1 cut(s)	387
SexAI	ACCWGGT	1 cut(s)	461
SfaNI	GCATC	1 cut(s)	586
SfcI	CTRYAG	1 cut(s)	450
SfiI	GGCCNNNNNGGCC	1 cut(s)	858
Sfr274I	CTCGAG	1 cut(s)	50
SfuI	TTCGAA	1 cut(s)	90
SinI	GGWCC	2 cut(s)	304, 465
SlaI	CTCGAG	1 cut(s)	50
SmiMI	CAYNNNNRTG	1 cut(s)	546
SmlI	CTYRAG	1 cut(s)	50
SmoI	CTYRAG	1 cut(s)	50
SphI	GCATGC	1 cut(s)	60
Sse9I	AATT	1 cut(s)	629
SsiI	CCGC	3 cut(s)	302, 307, 862
SspMI	CTAG	3 cut(s)	12, 242, 527
StyD4I	CCNGG	2 cut(s)	400, 461
StyI	CCWWGG	3 cut(s)	363, 680, 986
TaaI	ACNGT	1 cut(s)	454
TaiI	ACGT	1 cut(s)	859
TaqI	TCGA	3 cut(s)	51, 90, 521
TasI	AATT	1 cut(s)	629
TauI	GCSGC	1 cut(s)	864
TfiI	GAWTC	1 cut(s)	809
Tru1I	TTAA	6 cut(s)	36, 378, 570, 588, 896, 954
Tru9I	TTAA	6 cut(s)	36, 378, 570, 588, 896, 954
TscAI	CASTG	1 cut(s)	840
TseI	GCWGC	4 cut(s)	15, 299, 599, 719
TspDTI	ATGAA	5 cut(s)	177, 420, 564, 777, 951
TspRI	CASTG	1 cut(s)	840
VpaK11BI	GGWCC	2 cut(s)	304, 465
XagI	CCTNNNNNAGG	1 cut(s)	472
XbaI	TCTAGA	2 cut(s)	241, 526
XceI	RCATGY	3 cut(s)	60, 69, 608
XhoI	CTCGAG	1 cut(s)	50
XmnI	GAANNNNTTC	5 cut(s)	117, 263, 493, 555, 774
XspI	CTAG	3 cut(s)	12, 242, 527
Zsp2I	ATGCAT	1 cut(s)	62

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