Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0002901

Physical Location & Seq

Genomic Coordinates Forward (+)

4765295 .. 4768269

Gene Structure 2975 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG058100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 744 bp

ATGTACATAGCTTCAATGCGAAAGTCGTTCAAGGACTCTCTCAAAGTGCTTGAAGCTGATATTCAGCATGCAAATACTCTGGCTTCGGATTATCCGAGAGAGTATGATGGTGCTTGTCTTCAGATGAGAATGTCATACAGTCCAGCTGCTCATCTCTTCCTTTTTCTGGTGCAATGGACTGACTGTAACCTCGCTGGAGCCCTTGGTCTGCTCAGAATTCTAATTTACAAGGTTTATGTGGATGGCACAACCACCATGTCTACACATGAGAGGAAAGCAAGCATTCGAGATTTCTATGCTGTTATTTATCCCTCTTTATTGCAACTTGAAAGAGGTGTCACCGATAGTGAAGATAAAAGGCAGAAGGCAATATGCGTGGACAGGTATCGAAGAAGAGATGATGAGGAGAATCGACAGTGTTCAGATATAGATGTTGAGAGAGAAGAGGAATGCGGTATATGCATGGAGACAAATAGTAAAATTGTATTGCCCAACTGCAACCATGCTATGTGCCTAAAATGTTACCGTGATTGGCGAACAAGATCTCAGTCGTGCCCTTTCTGTCGTGACAGTCTTAAGAGAGTGAACTCAGGTGATCTCTGGGTATACACTGATAGCCGGGACATAGTTGACATGGCAACAGTAATGAGGGAGAATCTCAGGCGGCTCTTCATCTATGTAGATAAGTTGCCAGTAATTATACCAGATAACCTTTTTGACCCTTATGATTCCCACCTAAGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0043170 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0051865 GO:0070647 GO:0071704 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Prok-RING_4 zf-C3HC4_3 zf-RING_2

Protein Analysis

247

Amino Acids

28.89

Weight (kDa)

6.23

Isoelectric Point (pI)

50.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	148 - 194	1.2e-10	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	150 - 189	7.3e-09	Ring finger domain
Prok-RING_4	PF14447	151 - 193	6e-06	Prokaryotic RING finger family 4
zf-C3HC4	PF00097	151 - 188	8.7e-06	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: OG0002901)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01520 AT5G01520
fragaria_vesca	FvH4_3g04920 FvH4_6g11510 FvH4_6g11510
malus_domestica	MD04G1151400.v1.1 MD05G1314700.v1.1 MD10G1296100.v1.1 MD12G1165500.v1.1
prunus_persica	Prupe.4G044500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1 Prupe.6G276500_v2.0.a1
pyrus_communis	pycom04g13730 pycom05g29250 pycom10g24860 pycom12g15810
rosa_chinensis	RchiOBHm_Chr3g0463221 RchiOBHm_Chr5g0008081
rosa_laevigata	RLG00000024801 RLG00000031534
rosa_multiflora	Rmu_sc0001626.1_g000003 Rmu_sc0004643.1_g000001 Rmu_sc0017465.1_g000004
rosa_roxburghii	Rroxscaffold_1G00068400 Rroxscaffold_6G00416790
rosa_rugosa	Rorug03G0062500 Rorug03G0062500 Rorug04G0433300
rosa_samantha	Rh3AG120700 Rh3BG125100 Rh3CG127200 Rh3DG126300 Rh5BG058100 Rh5CG068200 Rh5DG057300
rosa_wichuraiana	Rw3G010250 Rw5G005930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	260, 606
AciI	CCGC	2 cut(s)	453, 664
AcsI	RAATTY	1 cut(s)	216
AcuI	CTGAAG	1 cut(s)	104
AfaI	GTAC	1 cut(s)	5
AfiI	CCNNNNNNNGG	2 cut(s)	166, 738
AflII	CTTAAG	1 cut(s)	575
AgsI	TTSAA	4 cut(s)	15, 31, 53, 329
AluBI	AGCT	3 cut(s)	11, 56, 146
AluI	AGCT	3 cut(s)	11, 56, 146
Alw26I	GTCTC	1 cut(s)	461
ApeKI	GCWGC	1 cut(s)	146
ApoI	RAATTY	1 cut(s)	216
AsuC2I	CCSGG	1 cut(s)	620
AsuHPI	GGTGA	2 cut(s)	331, 605
AxyI	CCTNAGG	1 cut(s)	737
BaeGI	GKGCMC	1 cut(s)	557
BanII	GRGCYC	1 cut(s)	202
BbsI	GAAGAC	1 cut(s)	110
BbvI	GCAGC	1 cut(s)	133
BccI	CCATC	2 cut(s)	101, 236
BcnI	CCSGG	1 cut(s)	620
BcoDI	GTCTC	1 cut(s)	461
BfrI	CTTAAG	1 cut(s)	575
BglII	AGATCT	1 cut(s)	542
BisI	GCNGC	2 cut(s)	147, 665
BlsI	GCNGC	2 cut(s)	148, 666
Bme1390I	CCNGG	1 cut(s)	620
BmiI	GGNNCC	1 cut(s)	199
BmrFI	CCNGG	1 cut(s)	620
BpiI	GAAGAC	1 cut(s)	110
BpmI	CTGGAG	1 cut(s)	216
BpuMI	CCSGG	1 cut(s)	620
BsaJI	CCNNGG	1 cut(s)	202
Bsc4I	CCNNNNNNNGG	2 cut(s)	166, 738
Bse1I	ACTGG	1 cut(s)	692
Bse21I	CCTNAGG	1 cut(s)	737
Bse3DI	GCAATG	1 cut(s)	179
BseDI	CCNNGG	1 cut(s)	202
BseGI	GGATG	1 cut(s)	247
BseLI	CCNNNNNNNGG	2 cut(s)	166, 738
BseMI	GCAATG	1 cut(s)	179
BseMII	CTCAG	4 cut(s)	226, 560, 603, 673
BseNI	ACTGG	1 cut(s)	692
BseRI	GAGGAG	1 cut(s)	419
BseSI	GKGCMC	1 cut(s)	557
BseXI	GCAGC	1 cut(s)	133
BsiSI	CCGG	1 cut(s)	619
BslFI	GGGAC	1 cut(s)	635
BslI	CCNNNNNNNGG	2 cut(s)	166, 738
BsmAI	GTCTC	1 cut(s)	461
BsmFI	GGGAC	1 cut(s)	635
BsmI	GAATGC	2 cut(s)	282, 455
Bsp1286I	GDGCHC	2 cut(s)	202, 557
Bsp1407I	TGTACA	1 cut(s)	3
Bsp143I	GATC	2 cut(s)	542, 595
BspACI	CCGC	2 cut(s)	453, 664
BspCNI	CTCAG	4 cut(s)	225, 559, 602, 672
BspLI	GGNNCC	1 cut(s)	199
BspQI	GCTCTTC	1 cut(s)	674
BspTI	CTTAAG	1 cut(s)	575
BsrDI	GCAATG	1 cut(s)	179
BsrGI	TGTACA	1 cut(s)	3
BsrI	ACTGG	1 cut(s)	692
BssECI	CCNNGG	1 cut(s)	202
BssMI	GATC	2 cut(s)	542, 595
BssNAI	GTATAC	1 cut(s)	607
BssT1I	CCWWGG	1 cut(s)	202
Bst1107I	GTATAC	1 cut(s)	607
Bst4CI	ACNGT	6 cut(s)	140, 185, 417, 527, 572, 643
Bst6I	CTCTTC	4 cut(s)	161, 388, 438, 674
BstAFI	CTTAAG	1 cut(s)	575
BstAUI	TGTACA	1 cut(s)	3
BstC8I	GCNNGC	2 cut(s)	69, 280
BstDEI	CTNAG	5 cut(s)	212, 546, 589, 659, 737
BstF5I	GGATG	1 cut(s)	247
BstKTI	GATC	2 cut(s)	545, 598
BstMAI	GTCTC	1 cut(s)	461
BstMBI	GATC	2 cut(s)	542, 595
BstMWI	GCNNNNNNNGC	1 cut(s)	459
BstNSI	RCATGY	1 cut(s)	71
BstSCI	CCNGG	1 cut(s)	618
BstSLI	GKGCMC	1 cut(s)	557
BstV1I	GCAGC	1 cut(s)	133
BstV2I	GAAGAC	1 cut(s)	110
BstX2I	RGATCY	1 cut(s)	542
BstYI	RGATCY	1 cut(s)	542
BstZ17I	GTATAC	1 cut(s)	607
Bsu36I	CCTNAGG	1 cut(s)	737
BtsCI	GGATG	1 cut(s)	247
BtsIMutI	CAGTG	2 cut(s)	422, 609
Cac8I	GCNNGC	2 cut(s)	69, 280
Csp6I	GTAC	1 cut(s)	4
CspCI	CAANNNNNGTGG	2 cut(s)	357, 392
CviAII	CATG	6 cut(s)	68, 256, 266, 463, 503, 634
CviJI	RGCY	7 cut(s)	11, 56, 83, 146, 200, 618, 667
CviKI_1	RGCY	7 cut(s)	11, 56, 83, 146, 200, 618, 667
CviQI	GTAC	1 cut(s)	4
DdeI	CTNAG	5 cut(s)	212, 546, 589, 659, 737
DpnI	GATC	2 cut(s)	544, 597
DpnII	GATC	2 cut(s)	542, 595
Eam1104I	CTCTTC	4 cut(s)	161, 388, 438, 674
EarI	CTCTTC	4 cut(s)	161, 388, 438, 674
Eco130I	CCWWGG	1 cut(s)	202
Eco24I	GRGCYC	1 cut(s)	202
Eco57I	CTGAAG	1 cut(s)	104
Eco81I	CCTNAGG	1 cut(s)	737
EcoRI	GAATTC	1 cut(s)	216
EcoT14I	CCWWGG	1 cut(s)	202
EcoT22I	ATGCAT	1 cut(s)	464
EcoT38I	GRGCYC	1 cut(s)	202
ErhI	CCWWGG	1 cut(s)	202
FaeI	CATG	6 cut(s)	71, 259, 269, 466, 506, 637
FaqI	GGGAC	1 cut(s)	635
FatI	CATG	6 cut(s)	67, 255, 265, 462, 502, 633
FblI	GTMKAC	2 cut(s)	260, 606
Fnu4HI	GCNGC	2 cut(s)	147, 665
FokI	GGATG	1 cut(s)	254
FriOI	GRGCYC	1 cut(s)	202
Fsp4HI	GCNGC	2 cut(s)	147, 665
GluI	GCNGC	2 cut(s)	147, 665
GsuI	CTGGAG	1 cut(s)	216
HapII	CCGG	1 cut(s)	619
Hin1II	CATG	6 cut(s)	71, 259, 269, 466, 506, 637
HincII	GTYRAC	1 cut(s)	631
HindII	GTYRAC	1 cut(s)	631
HinfI	GANTC	4 cut(s)	35, 409, 655, 728
HpaII	CCGG	1 cut(s)	619
HphI	GGTGA	2 cut(s)	331, 605
Hpy166II	GTNNAC	5 cut(s)	261, 379, 586, 607, 631
Hpy188I	TCNGA	5 cut(s)	88, 96, 123, 215, 424
Hpy188III	TCNNGA	2 cut(s)	287, 566
Hpy8I	GTNNAC	5 cut(s)	261, 379, 586, 607, 631
HpyAV	CCTTC	1 cut(s)	358
HpyCH4III	ACNGT	6 cut(s)	140, 185, 417, 527, 572, 643
HpyCH4V	TGCA	5 cut(s)	71, 172, 322, 462, 498
HpyF10VI	GCNNNNNNNGC	1 cut(s)	459
HpyF3I	CTNAG	5 cut(s)	212, 546, 589, 659, 737
Hsp92II	CATG	6 cut(s)	71, 259, 269, 466, 506, 637
Kzo9I	GATC	2 cut(s)	542, 595
LguI	GCTCTTC	1 cut(s)	674
LmnI	GCTCC	1 cut(s)	197
Lsp1109I	GCAGC	1 cut(s)	133
MaeIII	GTNAC	4 cut(s)	185, 337, 521, 566
MalI	GATC	2 cut(s)	544, 597
MboI	GATC	2 cut(s)	542, 595
MboII	GAAGA	7 cut(s)	110, 148, 362, 402, 405, 455, 661
MflI	RGATCY	1 cut(s)	542
MhlI	GDGCHC	2 cut(s)	202, 557
MluCI	AATT	4 cut(s)	216, 222, 480, 696
MlyI	GAGTC	1 cut(s)	29
MnlI	CCTC	7 cut(s)	200, 264, 322, 326, 397, 439, 642
Mph1103I	ATGCAT	1 cut(s)	464
MseI	TTAA	1 cut(s)	576
MspA1I	CMGCKG	1 cut(s)	146
MspCI	CTTAAG	1 cut(s)	575
MspI	CCGG	1 cut(s)	619
MspR9I	CCNGG	1 cut(s)	620
Mva1269I	GAATGC	2 cut(s)	282, 455
MwoI	GCNNNNNNNGC	1 cut(s)	459
NciI	CCSGG	1 cut(s)	620
NdeII	GATC	2 cut(s)	542, 595
NlaIII	CATG	6 cut(s)	71, 259, 269, 466, 506, 637
NlaIV	GGNNCC	1 cut(s)	199
NmuCI	GTSAC	2 cut(s)	337, 566
NsiI	ATGCAT	1 cut(s)	464
NspI	RCATGY	1 cut(s)	71
PaeI	GCATGC	1 cut(s)	71
PciSI	GCTCTTC	1 cut(s)	674
PcsI	WCGNNNNNNNCGW	1 cut(s)	92
PctI	GAATGC	2 cut(s)	282, 455
PfeI	GAWTC	3 cut(s)	409, 655, 728
PkrI	GCNGC	2 cut(s)	148, 666
PleI	GAGTC	1 cut(s)	29
PpsI	GAGTC	1 cut(s)	29
PspN4I	GGNNCC	1 cut(s)	199
PsuI	RGATCY	1 cut(s)	542
PvuII	CAGCTG	1 cut(s)	146
RsaI	GTAC	1 cut(s)	5
RsaNI	GTAC	1 cut(s)	4
SapI	GCTCTTC	1 cut(s)	674
SaqAI	TTAA	1 cut(s)	576
SatI	GCNGC	2 cut(s)	147, 665
Sau3AI	GATC	2 cut(s)	542, 595
SchI	GAGTC	1 cut(s)	29
ScrFI	CCNGG	1 cut(s)	620
SduI	GDGCHC	2 cut(s)	202, 557
SmlI	CTYRAG	1 cut(s)	575
SmoI	CTYRAG	1 cut(s)	575
SphI	GCATGC	1 cut(s)	71
Sse9I	AATT	4 cut(s)	216, 222, 480, 696
SsiI	CCGC	2 cut(s)	453, 664
StyD4I	CCNGG	1 cut(s)	618
StyI	CCWWGG	1 cut(s)	202
TaaI	ACNGT	6 cut(s)	140, 185, 417, 527, 572, 643
TaqI	TCGA	3 cut(s)	286, 388, 412
TasI	AATT	4 cut(s)	216, 222, 480, 696
TatI	WGTACW	1 cut(s)	3
TauI	GCSGC	1 cut(s)	667
TfiI	GAWTC	3 cut(s)	409, 655, 728
Tru1I	TTAA	1 cut(s)	576
Tru9I	TTAA	1 cut(s)	576
TscAI	CASTG	2 cut(s)	422, 616
TseFI	GTSAC	2 cut(s)	337, 566
TseI	GCWGC	1 cut(s)	146
Tsp45I	GTSAC	2 cut(s)	337, 566
TspDTI	ATGAA	1 cut(s)	661
TspRI	CASTG	2 cut(s)	422, 616
Vha464I	CTTAAG	1 cut(s)	575
XapI	RAATTY	1 cut(s)	216
XceI	RCATGY	1 cut(s)	71
XmiI	GTMKAC	2 cut(s)	260, 606
Zsp2I	ATGCAT	1 cut(s)	464

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