Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0000310

Physical Location & Seq

Genomic Coordinates Forward (+)

37874775 .. 37904090

Gene Structure 29316 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG192900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 750 bp

ATGCTTGATGCTTACGAAGAGTTCTATGGACCTAATATGGGCACTGTTTATCTATTTGGGAAGGTTAAAGTAGGAAGTTCATATCAGAGTTGTTGTGCGGTTGTAAAGAACATGCAAAGATGTGTCTATGCAATTCCGGACAGTCCTTTATTTCAAACTGACGAAATGATGAAGCTTGAAAAGGATGCCGAGGACTCAAGGATTTCACCCACAGATTTTCGTAAGAAGCTGCATAATGCGGCTTCAGAATTAAAGAATGAATTAGCAAAGAAGTTGTTGGATCTCAATGTATCAGCTTTTAGCATGGCACCTGTCAAGAGGAACTATGCTTTTGAGCGATCTGACATACCTGCAGGGGAGAATTATGTACTGAAGATCAATTATCCATTCCGGGATCCACCACTATCAGCATATCTAAAAGGAGAAACTTTTTGTGCTCTTCTAGGAACTCATAGCAGCGCGTTGGAACTTTTCCTTGTTAAAAGGAAGATAAAAGGACCTTCTTGGCTATCAGTTTCAAATTTTTCCATCTGCCCAGCTCCACAACGGGTAAGCTGGTGCAAATTTGAGGTGATCGTGAATGCTCCGAAAGATATAAGGGTCTCAGCTTCCACAAAGAAAACTGTAGATATTCCTCAAGTGGTTGTTACTGCAATAAGTTTGAAAACTATTATCAATGAGAAGCAGAATGTTAACGAAATTGTCTCTGCATCTGTTGTCTACTGTAACAAGGCCAAGGATTATCTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0000726 GO:0003674 GO:0003824 GO:0003887 GO:0003896 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005658 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006269 GO:0006270 GO:0006271 GO:0006272 GO:0006273 GO:0006281 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0007275 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009653 GO:0009965 GO:0009987 GO:0010016 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0022616 GO:0030880 GO:0030894 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0032993 GO:0033554 GO:0034061 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0048366 GO:0048367 GO:0048731 GO:0048827 GO:0048856 GO:0050896 GO:0051716 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0071897 GO:0090304 GO:0097747 GO:0099402 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1905392 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 map00230 map00240 map01100 map03030

Pfam Domains

Protein Families

DNA_pol_B DNA_pol_B_exo1 DNA_pol_alpha_N zf-DNA_Pol

Protein Analysis

249

Amino Acids

27.9

Weight (kDa)

8.93

Isoelectric Point (pI)

33.3

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_B_exo1	PF03104	151 - 241	1.2e-08	DNA polymerase family B, exonuclease domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0000310)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G67100 AT5G67100
fragaria_vesca	FvH4_1g20001 FvH4_1g22730 FvH4_1g22730 FvH4_1g22730 FvH4_6g13861 FvH4_6g33603
malus_domestica	MD02G1174100.v1.1 MD02G1174200.v1.1 MD02G1174400.v1.1 MD15G1285400.v1.1
prunus_persica	Prupe.7G131600_v2.0.a1
pyrus_communis	pycom02g14040 pycom02g14050 pycom02g14060 pycom02g14070 pycom15g24830 pycom15g24840
rosa_chinensis	RchiOBHm_Chr2g0109901 RchiOBHm_Chr2g0117021 RchiOBHm_Chr2g0168121 RchiOBHm_Chr4g0394581
rosa_laevigata	RLG00000001621 RLG00000001943 RLG00000003450 RLG00000006116 RLG00000006535 RLG00000008147 RLG00000009121 RLG00000010680 RLG00000013987 RLG00000017585 RLG00000017603 RLG00000017638 RLG00000017923 RLG00000018320 RLG00000021520 RLG00000022613 RLG00000022614 RLG00000023966 RLG00000025998 RLG00000027760 RLG00000033421
rosa_multiflora	Rmu_co7985806.1_g000001 Rmu_co8250293.1_g000001 Rmu_co8353517.1_g000001 Rmu_sc0000697.1_g000011 Rmu_sc0000776.1_g000079 Rmu_sc0001023.1_g000057 Rmu_sc0001266.1_g000019 Rmu_sc0002711.1_g000010 Rmu_sc0002731.1_g000005 Rmu_sc0003002.1_g000047 Rmu_sc0003030.1_g000002 Rmu_sc0003672.1_g000003 Rmu_sc0004168.1_g000062 Rmu_sc0004180.1_g000003 Rmu_sc0009205.1_g000008 Rmu_sc0011259.1_g000001 Rmu_sc0011259.1_g000002 Rmu_sc0027274.1_g000001
rosa_roxburghii	Rroxscaffold_1G00023520 Rroxscaffold_2G00104450 Rroxscaffold_2G00126810 Rroxscaffold_2G00144870 Rroxscaffold_4G00315680 Rroxscaffold_4G00331480 Rroxscaffold_7G00182820
rosa_rugosa	Rorug02G0209600 Rorug04G0130600 Rorug04G0130600 Rorug04G0130700 Rorug05G0230000
rosa_samantha	Rh1AG170000 Rh1CG157700 Rh1CG385600 Rh2AG215100 Rh2AG265500 Rh2BG277300 Rh2CG217600 Rh2CG217700 Rh2DG220600 Rh2DG272800 Rh2DG291800 Rh3AG215700 Rh3BG271700 Rh3DG075200 Rh3DG242600 Rh4AG115400 Rh4AG138100 Rh4AG333600 Rh4BG115100 Rh4BG366300 Rh4CG125400 Rh4CG380400 Rh4DG083500 Rh4DG113200 Rh4DG192900 Rh4DG246300 Rh5AG075000 Rh5BG482300 Rh5CG181200 Rh5CG247200 Rh5CG506900 Rh5DG167600 Rh5DG202900 Rh6AG000500 Rh6AG213400 Rh6BG335800 Rh6CG255700 Rh7AG337500 Rh7BG404500 Rh7BG461500 Rh7CG355600
rosa_wichuraiana	Rw0G019110 Rw2G020950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	358
AccB1I	GGYRCC	1 cut(s)	307
AccI	GTMKAC	1 cut(s)	720
AccII	CGCG	1 cut(s)	461
AccIII	TCCGGA	1 cut(s)	136
AciI	CCGC	2 cut(s)	98, 239
AclWI	GGATC	3 cut(s)	288, 389, 402
AcsI	RAATTY	2 cut(s)	520, 563
AcuI	CTGAAG	2 cut(s)	228, 392
AfaI	GTAC	1 cut(s)	369
AfiI	CCNNNNNNNGG	1 cut(s)	38
AgsI	TTSAA	4 cut(s)	155, 179, 519, 664
AluBI	AGCT	6 cut(s)	175, 229, 296, 539, 555, 608
AluI	AGCT	6 cut(s)	175, 229, 296, 539, 555, 608
Alw21I	GWGCWC	1 cut(s)	439
Alw26I	GTCTC	2 cut(s)	607, 709
AlwI	GGATC	3 cut(s)	288, 389, 402
Aor13HI	TCCGGA	1 cut(s)	136
AoxI	GGCC	1 cut(s)	732
ApeKI	GCWGC	2 cut(s)	229, 456
ApoI	RAATTY	2 cut(s)	520, 563
AspLEI	GCGC	1 cut(s)	461
AspS9I	GGNCC	2 cut(s)	29, 497
AsuC2I	CCSGG	1 cut(s)	392
AsuHPI	GGTGA	2 cut(s)	198, 583
AvaII	GGWCC	2 cut(s)	29, 497
BaeGI	GKGCMC	1 cut(s)	44
BamHI	GGATCC	1 cut(s)	394
BanI	GGYRCC	1 cut(s)	307
Bbv12I	GWGCWC	1 cut(s)	439
BbvI	GCAGC	2 cut(s)	216, 468
BccI	CCATC	1 cut(s)	536
BcnI	CCSGG	1 cut(s)	392
BcoDI	GTCTC	2 cut(s)	607, 709
BfaI	CTAG	1 cut(s)	443
BfmI	CTRYAG	2 cut(s)	351, 624
BfuAI	ACCTGC	1 cut(s)	358
BisI	GCNGC	3 cut(s)	230, 240, 457
BlsI	GCNGC	3 cut(s)	231, 241, 458
Bme1390I	CCNGG	1 cut(s)	392
Bme18I	GGWCC	2 cut(s)	29, 497
BmgT120I	GGNCC	2 cut(s)	29, 497
BmiI	GGNNCC	2 cut(s)	309, 396
BmrFI	CCNGG	1 cut(s)	392
BmsI	GCATC	2 cut(s)	175, 719
BpuEI	CTTGAG	2 cut(s)	181, 621
BpuMI	CCSGG	1 cut(s)	392
BsaI	GGTCTC	1 cut(s)	607
BsaJI	CCNNGG	2 cut(s)	189, 735
BsaWI	WCCGGW	1 cut(s)	136
Bsc4I	CCNNNNNNNGG	1 cut(s)	38
BseAI	TCCGGA	1 cut(s)	136
BseDI	CCNNGG	2 cut(s)	189, 735
BseGI	GGATG	1 cut(s)	190
BseLI	CCNNNNNNNGG	1 cut(s)	38
BseMII	CTCAG	1 cut(s)	618
BseSI	GKGCMC	1 cut(s)	44
BseXI	GCAGC	2 cut(s)	216, 468
BseYI	CCCAGC	1 cut(s)	535
Bsh1236I	CGCG	1 cut(s)	461
BshFI	GGCC	1 cut(s)	734
BshNI	GGYRCC	1 cut(s)	307
BsiHKAI	GWGCWC	1 cut(s)	439
BsiSI	CCGG	2 cut(s)	137, 391
BslI	CCNNNNNNNGG	1 cut(s)	38
BsmAI	GTCTC	2 cut(s)	607, 709
BsmI	GAATGC	1 cut(s)	586
BsnI	GGCC	1 cut(s)	734
Bso31I	GGTCTC	1 cut(s)	607
Bsp1286I	GDGCHC	2 cut(s)	44, 439
Bsp13I	TCCGGA	1 cut(s)	136
Bsp143I	GATC	5 cut(s)	280, 338, 375, 394, 573
BspACI	CCGC	2 cut(s)	98, 239
BspANI	GGCC	1 cut(s)	734
BspCNI	CTCAG	1 cut(s)	617
BspEI	TCCGGA	1 cut(s)	136
BspFNI	CGCG	1 cut(s)	461
BspLI	GGNNCC	2 cut(s)	309, 396
BspMAI	CTGCAG	1 cut(s)	355
BspMI	ACCTGC	1 cut(s)	358
BspPI	GGATC	3 cut(s)	288, 389, 402
BspQI	GCTCTTC	1 cut(s)	444
BspT107I	GGYRCC	1 cut(s)	307
BspTNI	GGTCTC	1 cut(s)	607
BssECI	CCNNGG	2 cut(s)	189, 735
BssMI	GATC	5 cut(s)	280, 338, 375, 394, 573
BssT1I	CCWWGG	1 cut(s)	735
Bst4CI	ACNGT	4 cut(s)	46, 143, 625, 725
Bst6I	CTCTTC	2 cut(s)	12, 444
BstDEI	CTNAG	1 cut(s)	604
BstF5I	GGATG	1 cut(s)	190
BstFNI	CGCG	1 cut(s)	461
BstHHI	GCGC	1 cut(s)	461
BstKTI	GATC	5 cut(s)	283, 341, 378, 397, 576
BstMAI	GTCTC	2 cut(s)	607, 709
BstMBI	GATC	5 cut(s)	280, 338, 375, 394, 573
BstNSI	RCATGY	1 cut(s)	115
BstSCI	CCNGG	1 cut(s)	390
BstSFI	CTRYAG	2 cut(s)	351, 624
BstSLI	GKGCMC	1 cut(s)	44
BstUI	CGCG	1 cut(s)	461
BstV1I	GCAGC	2 cut(s)	216, 468
BstX2I	RGATCY	2 cut(s)	280, 394
BstYI	RGATCY	2 cut(s)	280, 394
BsuRI	GGCC	1 cut(s)	734
BtsCI	GGATG	1 cut(s)	190
BtsIMutI	CAGTG	1 cut(s)	42
BveI	ACCTGC	1 cut(s)	358
CfoI	GCGC	1 cut(s)	461
Cfr13I	GGNCC	2 cut(s)	29, 497
Csp6I	GTAC	1 cut(s)	368
CviAII	CATG	2 cut(s)	112, 304
CviJI	RGCY	9 cut(s)	175, 229, 242, 296, 508, 539, 555, 608, 734
CviKI_1	RGCY	9 cut(s)	175, 229, 242, 296, 508, 539, 555, 608, 734
CviQI	GTAC	1 cut(s)	368
DdeI	CTNAG	1 cut(s)	604
DpnI	GATC	5 cut(s)	282, 340, 377, 396, 575
DpnII	GATC	5 cut(s)	280, 338, 375, 394, 573
Eam1104I	CTCTTC	2 cut(s)	12, 444
EarI	CTCTTC	2 cut(s)	12, 444
Eco130I	CCWWGG	1 cut(s)	735
Eco31I	GGTCTC	1 cut(s)	607
Eco47I	GGWCC	2 cut(s)	29, 497
Eco57I	CTGAAG	2 cut(s)	228, 392
EcoO109I	RGGNCCY	1 cut(s)	497
EcoT14I	CCWWGG	1 cut(s)	735
ErhI	CCWWGG	1 cut(s)	735
FaeI	CATG	2 cut(s)	115, 307
FatI	CATG	2 cut(s)	111, 303
FblI	GTMKAC	1 cut(s)	720
Fnu4HI	GCNGC	3 cut(s)	230, 240, 457
FokI	GGATG	1 cut(s)	197
Fsp4HI	GCNGC	3 cut(s)	230, 240, 457
FspBI	CTAG	1 cut(s)	443
GlaI	GCGC	1 cut(s)	460
GluI	GCNGC	3 cut(s)	230, 240, 457
GsaI	CCCAGC	1 cut(s)	539
HaeIII	GGCC	1 cut(s)	734
HapII	CCGG	2 cut(s)	137, 391
HhaI	GCGC	1 cut(s)	461
Hin1II	CATG	2 cut(s)	115, 307
Hin6I	GCGC	1 cut(s)	459
HinP1I	GCGC	1 cut(s)	459
HincII	GTYRAC	1 cut(s)	694
HindII	GTYRAC	1 cut(s)	694
HindIII	AAGCTT	1 cut(s)	173
HinfI	GANTC	1 cut(s)	194
HpaI	GTTAAC	1 cut(s)	694
HpaII	CCGG	2 cut(s)	137, 391
HphI	GGTGA	2 cut(s)	198, 583
Hpy166II	GTNNAC	2 cut(s)	694, 721
Hpy188I	TCNGA	4 cut(s)	87, 247, 343, 588
Hpy188III	TCNNGA	3 cut(s)	137, 316, 577
Hpy8I	GTNNAC	2 cut(s)	694, 721
HpyAV	CCTTC	2 cut(s)	55, 510
HpyCH4III	ACNGT	4 cut(s)	46, 143, 625, 725
HpyCH4V	TGCA	7 cut(s)	115, 131, 232, 353, 561, 653, 710
HpyF3I	CTNAG	1 cut(s)	604
Hsp92II	CATG	2 cut(s)	115, 307
HspAI	GCGC	1 cut(s)	459
Kpn2I	TCCGGA	1 cut(s)	136
KspAI	GTTAAC	1 cut(s)	694
Kzo9I	GATC	5 cut(s)	280, 338, 375, 394, 573
LguI	GCTCTTC	1 cut(s)	444
LmnI	GCTCC	2 cut(s)	544, 589
LpnPI	CCDG	7 cut(s)	150, 324, 339, 363, 404, 541, 549
Lsp1109I	GCAGC	2 cut(s)	216, 468
LweI	GCATC	2 cut(s)	175, 719
MaeI	CTAG	1 cut(s)	443
MaeIII	GTNAC	2 cut(s)	646, 725
MalI	GATC	5 cut(s)	282, 340, 377, 396, 575
MboI	GATC	5 cut(s)	280, 338, 375, 394, 573
MboII	GAAGA	4 cut(s)	29, 385, 431, 499
MflI	RGATCY	2 cut(s)	280, 394
MhlI	GDGCHC	2 cut(s)	44, 439
MluCI	AATT	8 cut(s)	132, 248, 260, 361, 379, 520, 563, 699
MlyI	GAGTC	1 cut(s)	188
MmeI	TCCRAC	2 cut(s)	258, 444
MnlI	CCTC	4 cut(s)	184, 312, 562, 645
MroI	TCCGGA	1 cut(s)	136
MseI	TTAA	4 cut(s)	66, 251, 480, 693
MspI	CCGG	2 cut(s)	137, 391
MspR9I	CCNGG	1 cut(s)	392
Mva1269I	GAATGC	1 cut(s)	586
MvnI	CGCG	1 cut(s)	461
NciI	CCSGG	1 cut(s)	392
NdeII	GATC	5 cut(s)	280, 338, 375, 394, 573
NlaIII	CATG	2 cut(s)	115, 307
NlaIV	GGNNCC	2 cut(s)	309, 396
NmeAIII	GCCGAG	1 cut(s)	214
NspI	RCATGY	1 cut(s)	115
PciSI	GCTCTTC	1 cut(s)	444
PctI	GAATGC	1 cut(s)	586
PfoI	TCCNGGA	1 cut(s)	390
PkrI	GCNGC	3 cut(s)	231, 241, 458
PleI	GAGTC	1 cut(s)	188
PpsI	GAGTC	1 cut(s)	188
PpuMI	RGGWCCY	1 cut(s)	497
Psp5II	RGGWCCY	1 cut(s)	497
PspFI	CCCAGC	1 cut(s)	535
PspN4I	GGNNCC	2 cut(s)	309, 396
PspPI	GGNCC	2 cut(s)	29, 497
PspPPI	RGGWCCY	1 cut(s)	497
PstI	CTGCAG	1 cut(s)	355
PsuI	RGATCY	2 cut(s)	280, 394
RsaI	GTAC	1 cut(s)	369
RsaNI	GTAC	1 cut(s)	368
SapI	GCTCTTC	1 cut(s)	444
SaqAI	TTAA	4 cut(s)	66, 251, 480, 693
SatI	GCNGC	3 cut(s)	230, 240, 457
Sau3AI	GATC	5 cut(s)	280, 338, 375, 394, 573
Sau96I	GGNCC	2 cut(s)	29, 497
SbfI	CCTGCAGG	1 cut(s)	355
SchI	GAGTC	1 cut(s)	188
ScrFI	CCNGG	1 cut(s)	392
SdaI	CCTGCAGG	1 cut(s)	355
SduI	GDGCHC	2 cut(s)	44, 439
SfaNI	GCATC	2 cut(s)	175, 719
SfcI	CTRYAG	2 cut(s)	351, 624
SinI	GGWCC	2 cut(s)	29, 497
SmlI	CTYRAG	2 cut(s)	196, 636
SmoI	CTYRAG	2 cut(s)	196, 636
Sse8387I	CCTGCAGG	1 cut(s)	355
Sse9I	AATT	8 cut(s)	132, 248, 260, 361, 379, 520, 563, 699
SsiI	CCGC	2 cut(s)	98, 239
SspMI	CTAG	1 cut(s)	443
StyD4I	CCNGG	1 cut(s)	390
StyI	CCWWGG	1 cut(s)	735
TaaI	ACNGT	4 cut(s)	46, 143, 625, 725
TasI	AATT	8 cut(s)	132, 248, 260, 361, 379, 520, 563, 699
TatI	WGTACW	1 cut(s)	367
TauI	GCSGC	1 cut(s)	242
Tru1I	TTAA	4 cut(s)	66, 251, 480, 693
Tru9I	TTAA	4 cut(s)	66, 251, 480, 693
TscAI	CASTG	1 cut(s)	49
TseI	GCWGC	2 cut(s)	229, 456
TspDTI	ATGAA	3 cut(s)	69, 185, 273
TspRI	CASTG	1 cut(s)	49
VpaK11BI	GGWCC	2 cut(s)	29, 497
XapI	RAATTY	2 cut(s)	520, 563
XceI	RCATGY	1 cut(s)	115
XmiI	GTMKAC	1 cut(s)	720
XspI	CTAG	1 cut(s)	443

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