Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0000310

Physical Location & Seq

Genomic Coordinates Forward (+)

34903342 .. 34905242

Gene Structure 1901 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG157700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 876 bp

ATGGGCACTGTTTATCTATTTGGGAAGGTTAAAGTAGGAAGTTCATATCAGAGTTGTTGTGCGGTTGTAAAGAACATGCAAAGATGTGTCTATGCAATTCCGGACAGTCCTTTATTTCAAACTGACGAAATGATGAAGCTTGAAAAGGATGCCGAGGACTCAAGGATTTCACCCACAGATTTTCATAAGAAGCTGCATAATGCGGCTTCAGAATTAAAGAATGCATTAGCAAAGAAGTTGTTGGATCTCAATGTATCAGCTTTTAGCATGGCACCTGTCAAGAGGAACTATGCTTTTGAGCGATCTGACATACCTGCAGGGGAGAATTATGTACTGAAGATCAATTATCCATTCCGGGATCCACCACTATCAGCAGATCTAAAAGGAGAAACTTTTTGTGCTCTTCTAGGAACTCATAGCAGCGCGTTGGAACTTTTCCTTGTTAAAAGGAAGATAAAAGGACCTTCTTGGCTATCAGTTTCAAATTTTTCCATCTGCCCAGCTCCACAACGGGTAAGCTGGTGCAAATTTGAGGTGATCGTGAATGCTCCGAAAGATATAAGGGTCTCAGCTTCCACAAAGAAAACTGTAGATATTCCTCAAGTGGTTGTTACTGCAATAAGTTTGAAAACTATTATCAATGAGAAGCAGAATGTTAACGAAATTGTCTCTGCATCTGTTGTCTACTGTAACAAGGCCAAGCTTGATGGTGGCATATTTCCTATGGGGTTTACTAAAGTGGCTGCAGATAAGAATTCTAAAGCCGGATCAAATGTCTTGAGCATTGAGGGCAGGTGGGCTTTACTCGGTTGGGTTTTTGTTTCTCATCGGTTTTTGACCGATGTCTGGGGCCATAATTCTAGTAGTGGTTGTTAA

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

291

Amino Acids

32.06

Weight (kDa)

9.23

Isoelectric Point (pI)

33.01

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_B_exo1	PF03104	139 - 231	1.1e-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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Align Labels (Cladogram)

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Publication-ready

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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)
AarI	CACCTGC	1 cut(s)	783
Acc36I	ACCTGC	2 cut(s)	322, 783
AccB1I	GGYRCC	1 cut(s)	271
AccI	GTMKAC	1 cut(s)	684
AccII	CGCG	1 cut(s)	425
AccIII	TCCGGA	1 cut(s)	100
AciI	CCGC	2 cut(s)	62, 203
AclWI	GGATC	4 cut(s)	252, 353, 366, 775
AcsI	RAATTY	3 cut(s)	484, 527, 754
AcuI	CTGAAG	2 cut(s)	192, 356
AfaI	GTAC	1 cut(s)	333
AfiI	CCNNNNNNNGG	1 cut(s)	846
AgsI	TTSAA	4 cut(s)	119, 143, 483, 628
AluBI	AGCT	7 cut(s)	139, 193, 260, 503, 519, 572, 703
AluI	AGCT	7 cut(s)	139, 193, 260, 503, 519, 572, 703
Alw21I	GWGCWC	1 cut(s)	403
Alw26I	GTCTC	2 cut(s)	571, 673
AlwI	GGATC	4 cut(s)	252, 353, 366, 775
Aor13HI	TCCGGA	1 cut(s)	100
AoxI	GGCC	2 cut(s)	696, 850
ApeKI	GCWGC	3 cut(s)	193, 420, 743
ApoI	RAATTY	3 cut(s)	484, 527, 754
AspLEI	GCGC	1 cut(s)	425
AspS9I	GGNCC	2 cut(s)	461, 850
AsuC2I	CCSGG	1 cut(s)	356
AsuHPI	GGTGA	2 cut(s)	162, 547
AvaII	GGWCC	1 cut(s)	461
BaeGI	GKGCMC	1 cut(s)	8
BamHI	GGATCC	1 cut(s)	358
BanI	GGYRCC	1 cut(s)	271
Bbv12I	GWGCWC	1 cut(s)	403
BbvI	GCAGC	3 cut(s)	180, 432, 730
BccI	CCATC	2 cut(s)	500, 701
BcnI	CCSGG	1 cut(s)	356
BcoDI	GTCTC	2 cut(s)	571, 673
BfaI	CTAG	2 cut(s)	407, 861
BfmI	CTRYAG	3 cut(s)	315, 588, 744
BfuAI	ACCTGC	2 cut(s)	322, 783
BglII	AGATCT	1 cut(s)	376
BisI	GCNGC	4 cut(s)	194, 204, 421, 744
BlsI	GCNGC	4 cut(s)	195, 205, 422, 745
Bme1390I	CCNGG	1 cut(s)	356
Bme18I	GGWCC	1 cut(s)	461
BmgT120I	GGNCC	2 cut(s)	461, 850
BmiI	GGNNCC	3 cut(s)	273, 360, 851
BmrFI	CCNGG	1 cut(s)	356
BmsI	GCATC	2 cut(s)	139, 683
BoxI	GACNNNNGTC	1 cut(s)	842
BpuEI	CTTGAG	3 cut(s)	145, 585, 799
BpuMI	CCSGG	1 cut(s)	356
BsaI	GGTCTC	1 cut(s)	571
BsaJI	CCNNGG	1 cut(s)	153
BsaWI	WCCGGW	1 cut(s)	100
Bsc4I	CCNNNNNNNGG	1 cut(s)	846
BseAI	TCCGGA	1 cut(s)	100
BseDI	CCNNGG	1 cut(s)	153
BseGI	GGATG	1 cut(s)	154
BseLI	CCNNNNNNNGG	1 cut(s)	846
BseMII	CTCAG	1 cut(s)	582
BseSI	GKGCMC	1 cut(s)	8
BseXI	GCAGC	3 cut(s)	180, 432, 730
BseYI	CCCAGC	1 cut(s)	499
Bsh1236I	CGCG	1 cut(s)	425
BshFI	GGCC	2 cut(s)	698, 852
BshNI	GGYRCC	1 cut(s)	271
BsiHKAI	GWGCWC	1 cut(s)	403
BsiSI	CCGG	3 cut(s)	101, 355, 765
BslI	CCNNNNNNNGG	1 cut(s)	846
BsmAI	GTCTC	2 cut(s)	571, 673
BsmI	GAATGC	2 cut(s)	226, 550
BsnI	GGCC	2 cut(s)	698, 852
Bso31I	GGTCTC	1 cut(s)	571
Bsp1286I	GDGCHC	2 cut(s)	8, 403
Bsp13I	TCCGGA	1 cut(s)	100
Bsp143I	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
BspACI	CCGC	2 cut(s)	62, 203
BspANI	GGCC	2 cut(s)	698, 852
BspCNI	CTCAG	1 cut(s)	581
BspEI	TCCGGA	1 cut(s)	100
BspFNI	CGCG	1 cut(s)	425
BspLI	GGNNCC	3 cut(s)	273, 360, 851
BspMAI	CTGCAG	2 cut(s)	319, 748
BspMI	ACCTGC	2 cut(s)	322, 783
BspPI	GGATC	4 cut(s)	252, 353, 366, 775
BspQI	GCTCTTC	1 cut(s)	408
BspT107I	GGYRCC	1 cut(s)	271
BspTNI	GGTCTC	1 cut(s)	571
BssECI	CCNNGG	1 cut(s)	153
BssMI	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
Bst4CI	ACNGT	4 cut(s)	10, 107, 589, 689
Bst6I	CTCTTC	1 cut(s)	408
BstDEI	CTNAG	1 cut(s)	568
BstF5I	GGATG	1 cut(s)	154
BstFNI	CGCG	1 cut(s)	425
BstHHI	GCGC	1 cut(s)	425
BstKTI	GATC	7 cut(s)	247, 305, 342, 361, 379, 540, 770
BstMAI	GTCTC	2 cut(s)	571, 673
BstMBI	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
BstMWI	GCNNNNNNNGC	1 cut(s)	789
BstNSI	RCATGY	1 cut(s)	79
BstPAI	GACNNNNGTC	1 cut(s)	842
BstSCI	CCNGG	1 cut(s)	354
BstSFI	CTRYAG	3 cut(s)	315, 588, 744
BstSLI	GKGCMC	1 cut(s)	8
BstUI	CGCG	1 cut(s)	425
BstV1I	GCAGC	3 cut(s)	180, 432, 730
BstX2I	RGATCY	3 cut(s)	244, 358, 376
BstYI	RGATCY	3 cut(s)	244, 358, 376
BsuRI	GGCC	2 cut(s)	698, 852
BtsCI	GGATG	1 cut(s)	154
BtsIMutI	CAGTG	1 cut(s)	6
BveI	ACCTGC	2 cut(s)	322, 783
CfoI	GCGC	1 cut(s)	425
Cfr13I	GGNCC	2 cut(s)	461, 850
Csp6I	GTAC	1 cut(s)	332
CviAII	CATG	2 cut(s)	76, 268
CviQI	GTAC	1 cut(s)	332
DdeI	CTNAG	1 cut(s)	568
DpnI	GATC	7 cut(s)	246, 304, 341, 360, 378, 539, 769
DpnII	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
Eam1104I	CTCTTC	1 cut(s)	408
EarI	CTCTTC	1 cut(s)	408
Eco31I	GGTCTC	1 cut(s)	571
Eco47I	GGWCC	1 cut(s)	461
Eco57I	CTGAAG	2 cut(s)	192, 356
EcoO109I	RGGNCCY	1 cut(s)	461
EcoRI	GAATTC	1 cut(s)	754
EcoT22I	ATGCAT	1 cut(s)	226
FaeI	CATG	2 cut(s)	79, 271
FatI	CATG	2 cut(s)	75, 267
FblI	GTMKAC	1 cut(s)	684
Fnu4HI	GCNGC	4 cut(s)	194, 204, 421, 744
FokI	GGATG	1 cut(s)	161
Fsp4HI	GCNGC	4 cut(s)	194, 204, 421, 744
FspBI	CTAG	2 cut(s)	407, 861
GlaI	GCGC	1 cut(s)	424
GluI	GCNGC	4 cut(s)	194, 204, 421, 744
GsaI	CCCAGC	1 cut(s)	503
HaeIII	GGCC	2 cut(s)	698, 852
HapII	CCGG	3 cut(s)	101, 355, 765
HhaI	GCGC	1 cut(s)	425
Hin1II	CATG	2 cut(s)	79, 271
Hin6I	GCGC	1 cut(s)	423
HinP1I	GCGC	1 cut(s)	423
HincII	GTYRAC	1 cut(s)	658
HindII	GTYRAC	1 cut(s)	658
HindIII	AAGCTT	2 cut(s)	137, 701
HinfI	GANTC	1 cut(s)	158
HpaI	GTTAAC	1 cut(s)	658
HpaII	CCGG	3 cut(s)	101, 355, 765
HphI	GGTGA	2 cut(s)	162, 547
Hpy166II	GTNNAC	3 cut(s)	658, 685, 732
Hpy188I	TCNGA	4 cut(s)	51, 211, 307, 552
Hpy188III	TCNNGA	4 cut(s)	101, 280, 541, 778
Hpy8I	GTNNAC	3 cut(s)	658, 685, 732
HpyAV	CCTTC	2 cut(s)	19, 474
HpyCH4III	ACNGT	4 cut(s)	10, 107, 589, 689
HpyCH4V	TGCA	9 cut(s)	79, 95, 196, 224, 317, 525, 617, 674, 746
HpyF10VI	GCNNNNNNNGC	1 cut(s)	789
HpyF3I	CTNAG	1 cut(s)	568
Hsp92II	CATG	2 cut(s)	79, 271
HspAI	GCGC	1 cut(s)	423
Kpn2I	TCCGGA	1 cut(s)	100
KspAI	GTTAAC	1 cut(s)	658
Kzo9I	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
LguI	GCTCTTC	1 cut(s)	408
LmnI	GCTCC	2 cut(s)	508, 553
Lsp1109I	GCAGC	3 cut(s)	180, 432, 730
LweI	GCATC	2 cut(s)	139, 683
MaeI	CTAG	2 cut(s)	407, 861
MaeIII	GTNAC	2 cut(s)	610, 689
MalI	GATC	7 cut(s)	246, 304, 341, 360, 378, 539, 769
MboI	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
MboII	GAAGA	3 cut(s)	349, 395, 463
MflI	RGATCY	3 cut(s)	244, 358, 376
MhlI	GDGCHC	2 cut(s)	8, 403
MluCI	AATT	9 cut(s)	96, 212, 325, 343, 484, 527, 663, 754, 856
MlyI	GAGTC	1 cut(s)	152
MmeI	TCCRAC	2 cut(s)	222, 408
MnlI	CCTC	5 cut(s)	148, 276, 526, 609, 781
Mph1103I	ATGCAT	1 cut(s)	226
MroI	TCCGGA	1 cut(s)	100
MseI	TTAA	5 cut(s)	30, 215, 444, 657, 874
MspI	CCGG	3 cut(s)	101, 355, 765
MspR9I	CCNGG	1 cut(s)	356
Mva1269I	GAATGC	2 cut(s)	226, 550
MvnI	CGCG	1 cut(s)	425
MwoI	GCNNNNNNNGC	1 cut(s)	789
NciI	CCSGG	1 cut(s)	356
NdeII	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
NlaIII	CATG	2 cut(s)	79, 271
NlaIV	GGNNCC	3 cut(s)	273, 360, 851
NmeAIII	GCCGAG	1 cut(s)	178
NsiI	ATGCAT	1 cut(s)	226
NspI	RCATGY	1 cut(s)	79
PaqCI	CACCTGC	1 cut(s)	783
PciSI	GCTCTTC	1 cut(s)	408
PctI	GAATGC	2 cut(s)	226, 550
PfoI	TCCNGGA	1 cut(s)	354
PkrI	GCNGC	4 cut(s)	195, 205, 422, 745
PleI	GAGTC	1 cut(s)	152
PpsI	GAGTC	1 cut(s)	152
PpuMI	RGGWCCY	1 cut(s)	461
PshAI	GACNNNNGTC	1 cut(s)	842
Psp5II	RGGWCCY	1 cut(s)	461
PspFI	CCCAGC	1 cut(s)	499
PspN4I	GGNNCC	3 cut(s)	273, 360, 851
PspPI	GGNCC	2 cut(s)	461, 850
PspPPI	RGGWCCY	1 cut(s)	461
PstI	CTGCAG	2 cut(s)	319, 748
PsuI	RGATCY	3 cut(s)	244, 358, 376
RsaI	GTAC	1 cut(s)	333
RsaNI	GTAC	1 cut(s)	332
SapI	GCTCTTC	1 cut(s)	408
SaqAI	TTAA	5 cut(s)	30, 215, 444, 657, 874
SatI	GCNGC	4 cut(s)	194, 204, 421, 744
Sau3AI	GATC	7 cut(s)	244, 302, 339, 358, 376, 537, 767
Sau96I	GGNCC	2 cut(s)	461, 850
SbfI	CCTGCAGG	1 cut(s)	319
SchI	GAGTC	1 cut(s)	152
ScrFI	CCNGG	1 cut(s)	356
SdaI	CCTGCAGG	1 cut(s)	319
SduI	GDGCHC	2 cut(s)	8, 403
SfaNI	GCATC	2 cut(s)	139, 683
SfcI	CTRYAG	3 cut(s)	315, 588, 744
SinI	GGWCC	1 cut(s)	461
SmlI	CTYRAG	3 cut(s)	160, 600, 778
SmoI	CTYRAG	3 cut(s)	160, 600, 778
Sse8387I	CCTGCAGG	1 cut(s)	319
Sse9I	AATT	9 cut(s)	96, 212, 325, 343, 484, 527, 663, 754, 856
SsiI	CCGC	2 cut(s)	62, 203
SspMI	CTAG	2 cut(s)	407, 861
StyD4I	CCNGG	1 cut(s)	354
TaaI	ACNGT	4 cut(s)	10, 107, 589, 689
TaqII	GACCGA	1 cut(s)	854
TasI	AATT	9 cut(s)	96, 212, 325, 343, 484, 527, 663, 754, 856
TatI	WGTACW	1 cut(s)	331
TauI	GCSGC	1 cut(s)	206
Tru1I	TTAA	5 cut(s)	30, 215, 444, 657, 874
Tru9I	TTAA	5 cut(s)	30, 215, 444, 657, 874
TscAI	CASTG	1 cut(s)	13
TseI	GCWGC	3 cut(s)	193, 420, 743
TspDTI	ATGAA	3 cut(s)	33, 149, 173
TspRI	CASTG	1 cut(s)	13
VpaK11BI	GGWCC	1 cut(s)	461
XapI	RAATTY	3 cut(s)	484, 527, 754
XceI	RCATGY	1 cut(s)	79
XmiI	GTMKAC	1 cut(s)	684
XspI	CTAG	2 cut(s)	407, 861
Zsp2I	ATGCAT	1 cut(s)	226

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