Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0003135

Physical Location & Seq

Genomic Coordinates Forward (+)

10688712 .. 10692478

Gene Structure 3767 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG130600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 933 bp

ATGGACGTCATCAAGACGCAGCAAATATCGGCGAGGTCGATCGAGAAGGTGATAGTTCACCCGCTGGTGCTACTCAGCATCGTCGACAACTACAACCGAGTCGCCAAGGACACTCGCAAACGAGTCGTCGGAGTCCTGCTCGGAAGCACTTACAAAGGCGTCGTCGACGTCTCCAACAGCTACGCAGTGCCTTTTGAAGAAGATGATAAAGACCCTAGCATTTGGTTTCTTGACCACAACTACCATGAAGCAATGTACTCTATGTTCAAGAGAATCAATGCAAAGGAGCACGTCGTAGGTTGGTATAGTACGGGGCCGAAACTACGAGAGAATGATCTTGATGTTCACAGCTTATTCCACAACTATGCCCCAAATCCTGTATTGGTCATTATTGACGTCCAGCCAAAGGAGCTGGGAATACCCACCAAAGCATACTATGATGTCGAAGAAGTTAAAGAGAATGCCACTCAAAAGAGCCAGAAGATTTTTGTTCATGTGCCCTCTGAAATTGCTGCTCATGAGGTTGAGGAAATCGGAGTGGAACACTTATTAAGGGATGTGAAGGATACAACCATCAGCACACTTGCAAATGAGGTTACTGGAAAAATTACTGCTCTAAAGGGTTTGGATGCACGGTTACGAGAAATTCGCAGTTATCTAGATCTTGTGATTGATGAAAAGCTGCCTCTAAATCATGAGATACTTTACCATTTGCAGGACGTGTTCAATCTGCTTCCAAATCTAAATGTGGCCGAATTAGTCAAGGGATTTGCAGTAAAAACAAATGACATGATGTTGGTTATATATCTTTCTTCTCTCATTCGTAGTGTCATTGCCCTCCACAACTTGATCAATAACAAGATGCTCAACAAAGAACATGAGAAAGCTGAGGATGCGAAGCCAGCAACAGCCCCATCTGCTTCTGCAAGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000502 GO:0003006 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006508 GO:0006511 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0010498 GO:0019538 GO:0019941 GO:0022414 GO:0030163 GO:0032501 GO:0032502 GO:0032991 GO:0043161 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0051603 GO:0061458 GO:0071704 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

JAB MitMem_reg

Protein Analysis

310

Amino Acids

35.0

Weight (kDa)

5.91

Isoelectric Point (pI)

38.0

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
JAB	PF01398	13 - 125	1.3e-35	JAB1/Mov34/MPN/PAD-1 ubiquitin protease
MitMem_reg	PF13012	174 - 285	8.9e-39	Maintenance of mitochondrial structure and function

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: OG0003135)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G11270 AT3G11270 AT5G05780 AT5G05780
fragaria_vesca	FvH4_6g11900 FvH4_7g24080
malus_domestica	MD01G1147900.v1.1 MD04G1148200.v1.1 MD07G1215000.v1.1 MD12G1161700.v1.1
prunus_persica	Prupe.2G247000_v2.0.a1 Prupe.2G247000_v2.0.a1 Prupe.6G272100_v2.0.a1
pyrus_communis	pycom01g16670 pycom04g13410 pycom07g19730 pycom12g15350
rosa_chinensis	RchiOBHm_Chr1g0369511 RchiOBHm_Chr3g0463641
rosa_laevigata	RLG00000024766 RLG00000027123
rosa_multiflora	Rmu_sc0003267.1_g000028 Rmu_ssc0000484.1_g000026
rosa_roxburghii	Rroxscaffold_4G00287570 Rroxscaffold_6G00416390
rosa_rugosa	Rorug01G0351000 Rorug03G0066700
rosa_samantha	Rh1AG359100 Rh1BG322800 Rh1CG336100 Rh1DG353600 Rh3AG123700 Rh3BG128400 Rh3CG130600 Rh3DG129000
rosa_wichuraiana	Rw1G031620 Rw3G010460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	3 cut(s)	9, 171, 399
AccI	GTMKAC	2 cut(s)	84, 165
AciI	CCGC	1 cut(s)	62
AcoI	YGGCCR	1 cut(s)	750
AcsI	RAATTY	1 cut(s)	645
AcyI	GRCGYC	4 cut(s)	6, 159, 168, 396
AfaI	GTAC	2 cut(s)	257, 310
AfiI	CCNNNNNNNGG	2 cut(s)	406, 715
AflIII	ACRYGT	1 cut(s)	720
AgsI	TTSAA	3 cut(s)	197, 268, 727
AjiI	CACGTC	2 cut(s)	292, 721
AluBI	AGCT	6 cut(s)	180, 351, 412, 682, 887, 930
AluI	AGCT	6 cut(s)	180, 351, 412, 682, 887, 930
Alw21I	GWGCWC	1 cut(s)	291
Alw26I	GTCTC	1 cut(s)	175
AoxI	GGCC	2 cut(s)	314, 750
ApeKI	GCWGC	3 cut(s)	19, 512, 682
ApoI	RAATTY	1 cut(s)	645
ArsI	GACNNNNNNTTYG	4 cut(s)	111, 143, 147, 179
AspS9I	GGNCC	1 cut(s)	314
AsuHPI	GGTGA	2 cut(s)	50, 61
BaeGI	GKGCMC	1 cut(s)	501
Bbv12I	GWGCWC	1 cut(s)	291
BbvCI	CCTCAGC	1 cut(s)	888
BbvI	GCAGC	3 cut(s)	31, 499, 669
BccI	CCATC	2 cut(s)	581, 922
BcgI	CGANNNNNNTGC	2 cut(s)	106, 140
BciVI	GTATCC	1 cut(s)	559
BclI	TGATCA	1 cut(s)	849
BcoDI	GTCTC	1 cut(s)	175
BfaI	CTAG	2 cut(s)	216, 659
BfuI	GTATCC	1 cut(s)	559
BglII	AGATCT	1 cut(s)	661
BisI	GCNGC	3 cut(s)	20, 513, 683
BlsI	GCNGC	3 cut(s)	21, 514, 684
BmgBI	CACGTC	2 cut(s)	292, 721
BmgT120I	GGNCC	1 cut(s)	314
BmiI	GGNNCC	1 cut(s)	315
BmsI	GCATC	4 cut(s)	87, 619, 852, 883
BplI	GAGNNNNNCTC	2 cut(s)	123, 155
Bpu10I	CCTNAGC	1 cut(s)	888
BsaHI	GRCGYC	4 cut(s)	6, 159, 168, 396
BsaJI	CCNNGG	1 cut(s)	105
Bsc4I	CCNNNNNNNGG	2 cut(s)	406, 715
Bse1I	ACTGG	1 cut(s)	604
Bse3DI	GCAATG	2 cut(s)	258, 831
BseDI	CCNNGG	1 cut(s)	105
BseGI	GGATG	3 cut(s)	562, 634, 898
BseLI	CCNNNNNNNGG	2 cut(s)	406, 715
BseMI	GCAATG	2 cut(s)	258, 831
BseMII	CTCAG	2 cut(s)	88, 879
BseNI	ACTGG	1 cut(s)	604
BseSI	GKGCMC	1 cut(s)	501
BseXI	GCAGC	3 cut(s)	31, 499, 669
BseYI	CCCAGC	1 cut(s)	412
Bsh1285I	CGRYCG	1 cut(s)	42
BshFI	GGCC	2 cut(s)	316, 752
BsiEI	CGRYCG	1 cut(s)	42
BsiHKAI	GWGCWC	1 cut(s)	291
BslI	CCNNNNNNNGG	2 cut(s)	406, 715
BsmAI	GTCTC	1 cut(s)	175
BsmBI	CGTCTC	1 cut(s)	175
BsmI	GAATGC	1 cut(s)	466
BsnI	GGCC	2 cut(s)	316, 752
Bsp1286I	GDGCHC	2 cut(s)	291, 501
Bsp143I	GATC	4 cut(s)	39, 334, 661, 849
BspACI	CCGC	1 cut(s)	62
BspANI	GGCC	2 cut(s)	316, 752
BspCNI	CTCAG	2 cut(s)	87, 880
BspHI	TCATGA	2 cut(s)	517, 694
BspLI	GGNNCC	1 cut(s)	315
BsrDI	GCAATG	2 cut(s)	258, 831
BsrI	ACTGG	1 cut(s)	604
BssECI	CCNNGG	1 cut(s)	105
BssMI	GATC	4 cut(s)	39, 334, 661, 849
BssNI	GRCGYC	4 cut(s)	6, 159, 168, 396
BssT1I	CCWWGG	1 cut(s)	105
Bst4CI	ACNGT	1 cut(s)	636
BstACI	GRCGYC	4 cut(s)	6, 159, 168, 396
BstC8I	GCNNGC	2 cut(s)	903, 928
BstDEI	CTNAG	2 cut(s)	74, 888
BstF5I	GGATG	3 cut(s)	562, 634, 898
BstKTI	GATC	4 cut(s)	42, 337, 664, 852
BstMAI	GTCTC	1 cut(s)	175
BstMBI	GATC	4 cut(s)	39, 334, 661, 849
BstMCI	CGRYCG	1 cut(s)	42
BstMWI	GCNNNNNNNGC	4 cut(s)	409, 893, 902, 917
BstSLI	GKGCMC	1 cut(s)	501
BstV1I	GCAGC	3 cut(s)	31, 499, 669
BstX2I	RGATCY	1 cut(s)	661
BstYI	RGATCY	1 cut(s)	661
BsuI	GTATCC	1 cut(s)	559
BsuRI	GGCC	2 cut(s)	316, 752
BtrI	CACGTC	2 cut(s)	292, 721
BtsCI	GGATG	3 cut(s)	562, 634, 898
BtsI	GCAGTG	1 cut(s)	192
BtsIMutI	CAGTG	1 cut(s)	192
Cac8I	GCNNGC	2 cut(s)	903, 928
CciI	TCATGA	2 cut(s)	517, 694
Cfr13I	GGNCC	1 cut(s)	314
CseI	GACGC	2 cut(s)	25, 148
Csp6I	GTAC	2 cut(s)	256, 309
CviAII	CATG	6 cut(s)	245, 494, 518, 695, 790, 878
CviQI	GTAC	2 cut(s)	256, 309
DdeI	CTNAG	2 cut(s)	74, 888
DpnI	GATC	4 cut(s)	41, 336, 663, 851
DpnII	GATC	4 cut(s)	39, 334, 661, 849
EaeI	YGGCCR	1 cut(s)	750
Eco130I	CCWWGG	1 cut(s)	105
EcoT14I	CCWWGG	1 cut(s)	105
ErhI	CCWWGG	1 cut(s)	105
Esp3I	CGTCTC	1 cut(s)	175
FaeI	CATG	6 cut(s)	248, 497, 521, 698, 793, 881
FatI	CATG	6 cut(s)	244, 493, 517, 694, 789, 877
FauI	CCCGC	1 cut(s)	69
FbaI	TGATCA	1 cut(s)	849
FblI	GTMKAC	2 cut(s)	84, 165
Fnu4HI	GCNGC	3 cut(s)	20, 513, 683
FokI	GGATG	3 cut(s)	569, 641, 905
Fsp4HI	GCNGC	3 cut(s)	20, 513, 683
FspBI	CTAG	2 cut(s)	216, 659
GluI	GCNGC	3 cut(s)	20, 513, 683
GsaI	CCCAGC	1 cut(s)	416
HaeIII	GGCC	2 cut(s)	316, 752
HgaI	GACGC	2 cut(s)	25, 148
Hin1I	GRCGYC	4 cut(s)	6, 159, 168, 396
Hin1II	CATG	6 cut(s)	248, 497, 521, 698, 793, 881
HincII	GTYRAC	2 cut(s)	85, 166
HindII	GTYRAC	2 cut(s)	85, 166
HinfI	GANTC	4 cut(s)	99, 123, 132, 273
HphI	GGTGA	2 cut(s)	50, 61
Hpy166II	GTNNAC	4 cut(s)	58, 85, 166, 346
Hpy188I	TCNGA	4 cut(s)	131, 143, 505, 536
Hpy188III	TCNNGA	8 cut(s)	13, 43, 230, 268, 338, 518, 659, 695
Hpy8I	GTNNAC	4 cut(s)	58, 85, 166, 346
Hpy99I	CGWCG	6 cut(s)	86, 131, 164, 167, 170, 296
HpyAV	CCTTC	2 cut(s)	40, 556
HpyCH4III	ACNGT	1 cut(s)	636
HpyCH4IV	ACGT	5 cut(s)	6, 168, 291, 396, 720
HpyCH4V	TGCA	6 cut(s)	281, 587, 632, 715, 773, 926
HpyF10VI	GCNNNNNNNGC	4 cut(s)	409, 893, 902, 917
HpyF3I	CTNAG	2 cut(s)	74, 888
HpySE526I	ACGT	5 cut(s)	6, 168, 291, 396, 720
Hsp92I	GRCGYC	4 cut(s)	6, 159, 168, 396
Hsp92II	CATG	6 cut(s)	248, 497, 521, 698, 793, 881
Ksp22I	TGATCA	1 cut(s)	849
Kzo9I	GATC	4 cut(s)	39, 334, 661, 849
LmnI	GCTCC	2 cut(s)	286, 409
LpnPI	CCDG	9 cut(s)	50, 149, 390, 398, 413, 491, 585, 701, 915
Lsp1109I	GCAGC	3 cut(s)	31, 499, 669
LweI	GCATC	4 cut(s)	87, 619, 852, 883
MaeI	CTAG	2 cut(s)	216, 659
MaeII	ACGT	5 cut(s)	6, 168, 291, 396, 720
MaeIII	GTNAC	2 cut(s)	595, 636
MalI	GATC	4 cut(s)	41, 336, 663, 851
MboI	GATC	4 cut(s)	39, 334, 661, 849
MboII	GAAGA	5 cut(s)	209, 212, 458, 493, 804
MflI	RGATCY	1 cut(s)	661
MhlI	GDGCHC	2 cut(s)	291, 501
MluCI	AATT	4 cut(s)	507, 606, 645, 755
MlyI	GAGTC	3 cut(s)	108, 132, 141
MmeI	TCCRAC	2 cut(s)	109, 198
MnlI	CCTC	8 cut(s)	27, 511, 514, 520, 586, 696, 848, 883
MseI	TTAA	2 cut(s)	453, 551
MslI	CAYNNNNRTG	1 cut(s)	363
MspA1I	CMGCKG	1 cut(s)	64
Mva1269I	GAATGC	1 cut(s)	466
MwoI	GCNNNNNNNGC	4 cut(s)	409, 893, 902, 917
NdeII	GATC	4 cut(s)	39, 334, 661, 849
NlaIII	CATG	6 cut(s)	248, 497, 521, 698, 793, 881
NlaIV	GGNNCC	1 cut(s)	315
PagI	TCATGA	2 cut(s)	517, 694
PcsI	WCGNNNNNNNCGW	1 cut(s)	35
PctI	GAATGC	1 cut(s)	466
PfeI	GAWTC	1 cut(s)	273
PkrI	GCNGC	3 cut(s)	21, 514, 684
Ple19I	CGATCG	1 cut(s)	42
PleI	GAGTC	3 cut(s)	107, 131, 140
PpsI	GAGTC	3 cut(s)	107, 131, 140
PspFI	CCCAGC	1 cut(s)	412
PspN4I	GGNNCC	1 cut(s)	315
PspPI	GGNCC	1 cut(s)	314
PsrI	GAACNNNNNNTAC	2 cut(s)	248, 280
PsuI	RGATCY	1 cut(s)	661
PvuI	CGATCG	1 cut(s)	42
RsaI	GTAC	2 cut(s)	257, 310
RsaNI	GTAC	2 cut(s)	256, 309
RseI	CAYNNNNRTG	1 cut(s)	363
SalI	GTCGAC	2 cut(s)	83, 164
SaqAI	TTAA	2 cut(s)	453, 551
SatI	GCNGC	3 cut(s)	20, 513, 683
Sau3AI	GATC	4 cut(s)	39, 334, 661, 849
Sau96I	GGNCC	1 cut(s)	314
SchI	GAGTC	3 cut(s)	108, 132, 141
SduI	GDGCHC	2 cut(s)	291, 501
SfaNI	GCATC	4 cut(s)	87, 619, 852, 883
SgrDI	CGTCGACG	1 cut(s)	164
SmiMI	CAYNNNNRTG	1 cut(s)	363
Sse9I	AATT	4 cut(s)	507, 606, 645, 755
SsiI	CCGC	1 cut(s)	62
SspMI	CTAG	2 cut(s)	216, 659
StyI	CCWWGG	1 cut(s)	105
TaaI	ACNGT	1 cut(s)	636
TaiI	ACGT	5 cut(s)	9, 171, 294, 399, 723
TaqI	TCGA	5 cut(s)	38, 42, 84, 165, 444
TasI	AATT	4 cut(s)	507, 606, 645, 755
TatI	WGTACW	1 cut(s)	255
TfiI	GAWTC	1 cut(s)	273
Tru1I	TTAA	2 cut(s)	453, 551
Tru9I	TTAA	2 cut(s)	453, 551
TscAI	CASTG	1 cut(s)	192
TseI	GCWGC	3 cut(s)	19, 512, 682
TspDTI	ATGAA	3 cut(s)	261, 482, 690
TspRI	CASTG	1 cut(s)	192
XapI	RAATTY	1 cut(s)	645
XbaI	TCTAGA	1 cut(s)	658
XmiI	GTMKAC	2 cut(s)	84, 165
XspI	CTAG	2 cut(s)	216, 659
ZraI	GACGTC	3 cut(s)	7, 169, 397

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