Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0016817

Physical Location & Seq

Genomic Coordinates Reverse (-)

33679833 .. 33686189

Gene Structure 6357 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG152700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 798 bp

ATGGATGCTCATGGATTGAATTACAACCACTCACTAGCCGAAAGCCTCAGGAAGCAGTTGCTAACTCCTTCAGAGCTCAAGGATCGGTTTTCAGACATATGTTTTGTTCGGTTGCCCAATCTTTATAAAGATCTATCTGGTTGGGGAAACTCTTTCAGGATGAAGATACCGTTTTCTGTTTTCTTGTTTGGTCATGCTTATGAGAGGAACTGCAATGAGCAGGATGGAATGGTGTTTGCACTGTTTAATTGTAGCCTACGCAAGGATGCTAAGGGTGCTGGTTTTTCTTTGAGTGTGTTTTCGGCCAATCAAATTGTGGAGATAGGAACTTCAGTTGATTATGGAGTCTGCAGAGGGAAAAGGAAGGATGGAATGGCTTGTACTTTAGTCATAAATAAGCGCCAAGGAATATATTGTAAATTTCATAGATCGAAAGAATCACAGAAATATTCCACTATGCAAACTGTGCTCAAGGGAGGAACCCGTACCAGCCAGAAGGAGTTTTTATGGGGAGAAGGAGAGAGGCAGCTGCATCTCGAGGAGGACATAAAAGGTCCAGTTAGAAGAAACCATCAACCTGCAAACAGAGCACAGTTGAAGTCTTCTCCCTCGTCATCCCTCATCCTGCAAAGCAGAAAGTGTGCATCCGATAAACAAATTACAAACCAGAAGATGAGGAAGATGATGACCGTGTTCTTTGGCATTCATTTACCACATAACAAAGTGCCTAAAGATTGGAAACATCTTTACCACATAGACAGGTACTTGAGATCTCTTATTGTTACTTGCTCTTGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0003674 GO:0003676 GO:0003677 GO:0003688 GO:0003690 GO:0003697 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006270 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0031298 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0034645 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0043596 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363 GO:1901576 GO:1990837

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-primase

Protein Analysis

265

Amino Acids

30.41

Weight (kDa)

9.7

Isoelectric Point (pI)

47.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
OB_MCM10	PF22379	58 - 106	1.2e-13	MCM10 OB-fold
zf-primase	PF09329	109 - 152	3.2e-14	Primase zinc 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)

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Tree File

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Publication-ready

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Orthologous Genes (Group: OG0016817)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g05800 FvH4_4g14930 FvH4_7g17270
rosa_chinensis	RchiOBHm_Chr1g0313751 RchiOBHm_Chr2g0115071 RchiOBHm_Chr3g0490401 RchiOBHm_Chr4g0432591
rosa_laevigata	RLG00000030779
rosa_multiflora	Rmu_sc0000600.1_g000052
rosa_roxburghii	Rroxscaffold_3G00250050
rosa_samantha	Rh4CG152700 Rh7BG355200
rosa_wichuraiana	Rw4G011880 Rw4G011900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	126
Acc36I	ACCTGC	1 cut(s)	586
AclWI	GGATC	1 cut(s)	90
AcoI	YGGCCR	1 cut(s)	303
AcsI	RAATTY	1 cut(s)	419
AcuI	CTGAAG	2 cut(s)	54, 315
AfaI	GTAC	3 cut(s)	382, 487, 764
AfiI	CCNNNNNNNGG	1 cut(s)	262
AgsI	TTSAA	2 cut(s)	19, 598
AluBI	AGCT	2 cut(s)	76, 529
AluI	AGCT	2 cut(s)	76, 529
Alw21I	GWGCWC	3 cut(s)	78, 471, 592
AlwI	GGATC	1 cut(s)	90
Ama87I	CYCGRG	1 cut(s)	536
AoxI	GGCC	1 cut(s)	303
ApeKI	GCWGC	2 cut(s)	526, 529
ApoI	RAATTY	1 cut(s)	419
ArsI	GACNNNNNNTTYG	2 cut(s)	86, 118
AspLEI	GCGC	1 cut(s)	402
AspS9I	GGNCC	1 cut(s)	554
AvaI	CYCGRG	1 cut(s)	536
AvaII	GGWCC	1 cut(s)	554
AxyI	CCTNAGG	1 cut(s)	47
BanII	GRGCYC	1 cut(s)	78
BbsI	GAAGAC	1 cut(s)	594
Bbv12I	GWGCWC	3 cut(s)	78, 471, 592
BbvI	GCAGC	2 cut(s)	516, 538
BccI	CCATC	3 cut(s)	218, 362, 579
BfaI	CTAG	1 cut(s)	35
BfmI	CTRYAG	1 cut(s)	349
BfoI	RGCGCY	1 cut(s)	403
BfuAI	ACCTGC	1 cut(s)	586
BglII	AGATCT	2 cut(s)	130, 770
BisI	GCNGC	2 cut(s)	527, 530
BlsI	GCNGC	2 cut(s)	528, 531
Bme18I	GGWCC	1 cut(s)	554
BmeT110I	CYCGRG	1 cut(s)	536
BmgT120I	GGNCC	1 cut(s)	554
BmiI	GGNNCC	1 cut(s)	481
BmsI	GCATC	3 cut(s)	256, 541, 653
BpiI	GAAGAC	1 cut(s)	594
Bpu10I	CCTNAGC	1 cut(s)	270
BpuEI	CTTGAG	3 cut(s)	62, 455, 787
BsaJI	CCNNGG	1 cut(s)	403
Bsc4I	CCNNNNNNNGG	1 cut(s)	262
Bse1I	ACTGG	1 cut(s)	557
Bse21I	CCTNAGG	1 cut(s)	47
Bse3DI	GCAATG	1 cut(s)	220
BseDI	CCNNGG	1 cut(s)	403
BseGI	GGATG	8 cut(s)	10, 165, 229, 271, 373, 614, 621, 644
BseLI	CCNNNNNNNGG	1 cut(s)	262
BseMI	GCAATG	1 cut(s)	220
BseMII	CTCAG	1 cut(s)	61
BseNI	ACTGG	1 cut(s)	557
BseRI	GAGGAG	1 cut(s)	554
BseXI	GCAGC	2 cut(s)	516, 538
BshFI	GGCC	1 cut(s)	305
BsiHKAI	GWGCWC	3 cut(s)	78, 471, 592
BsiHKCI	CYCGRG	1 cut(s)	536
BslI	CCNNNNNNNGG	1 cut(s)	262
BsmI	GAATGC	1 cut(s)	702
BsnI	GGCC	1 cut(s)	305
BsoBI	CYCGRG	1 cut(s)	536
Bsp1286I	GDGCHC	3 cut(s)	78, 471, 592
Bsp143I	GATC	4 cut(s)	82, 130, 428, 770
BspANI	GGCC	1 cut(s)	305
BspCNI	CTCAG	1 cut(s)	60
BspLI	GGNNCC	1 cut(s)	481
BspMAI	CTGCAG	1 cut(s)	353
BspMI	ACCTGC	1 cut(s)	586
BspPI	GGATC	1 cut(s)	90
BsrDI	GCAATG	1 cut(s)	220
BsrI	ACTGG	1 cut(s)	557
BssECI	CCNNGG	1 cut(s)	403
BssMI	GATC	4 cut(s)	82, 130, 428, 770
BssT1I	CCWWGG	1 cut(s)	403
Bst4CI	ACNGT	5 cut(s)	171, 243, 466, 594, 691
BstAPI	GCANNNNNTGC	1 cut(s)	466
BstDEI	CTNAG	2 cut(s)	47, 270
BstENI	CCTNNNNNAGG	1 cut(s)	260
BstF5I	GGATG	8 cut(s)	10, 165, 229, 271, 373, 614, 621, 644
BstH2I	RGCGCY	1 cut(s)	403
BstHHI	GCGC	1 cut(s)	402
BstKTI	GATC	4 cut(s)	85, 133, 431, 773
BstMBI	GATC	4 cut(s)	82, 130, 428, 770
BstMWI	GCNNNNNNNGC	3 cut(s)	275, 466, 587
BstSFI	CTRYAG	1 cut(s)	349
BstV1I	GCAGC	2 cut(s)	516, 538
BstV2I	GAAGAC	1 cut(s)	594
BstX2I	RGATCY	2 cut(s)	130, 770
BstYI	RGATCY	2 cut(s)	130, 770
Bsu36I	CCTNAGG	1 cut(s)	47
BsuRI	GGCC	1 cut(s)	305
BtsCI	GGATG	8 cut(s)	10, 165, 229, 271, 373, 614, 621, 644
BtsIMutI	CAGTG	1 cut(s)	239
BveI	ACCTGC	1 cut(s)	586
CfoI	GCGC	1 cut(s)	402
Cfr13I	GGNCC	1 cut(s)	554
Csp6I	GTAC	3 cut(s)	381, 486, 763
CviAII	CATG	2 cut(s)	11, 194
CviJI	RGCY	8 cut(s)	38, 45, 76, 255, 305, 377, 492, 529
CviKI_1	RGCY	8 cut(s)	38, 45, 76, 255, 305, 377, 492, 529
CviQI	GTAC	3 cut(s)	381, 486, 763
DdeI	CTNAG	2 cut(s)	47, 270
DpnI	GATC	4 cut(s)	84, 132, 430, 772
DpnII	GATC	4 cut(s)	82, 130, 428, 770
EaeI	YGGCCR	1 cut(s)	303
Ecl136II	GAGCTC	1 cut(s)	76
Eco130I	CCWWGG	1 cut(s)	403
Eco24I	GRGCYC	1 cut(s)	78
Eco47I	GGWCC	1 cut(s)	554
Eco53kI	GAGCTC	1 cut(s)	76
Eco57I	CTGAAG	2 cut(s)	54, 315
Eco81I	CCTNAGG	1 cut(s)	47
Eco88I	CYCGRG	1 cut(s)	536
EcoICRI	GAGCTC	1 cut(s)	76
EcoNI	CCTNNNNNAGG	1 cut(s)	260
EcoT14I	CCWWGG	1 cut(s)	403
EcoT38I	GRGCYC	1 cut(s)	78
ErhI	CCWWGG	1 cut(s)	403
FaeI	CATG	2 cut(s)	14, 197
FatI	CATG	2 cut(s)	10, 193
FauNDI	CATATG	1 cut(s)	98
Fnu4HI	GCNGC	2 cut(s)	527, 530
FokI	GGATG	8 cut(s)	17, 172, 236, 278, 380, 601, 608, 631
FriOI	GRGCYC	1 cut(s)	78
Fsp4HI	GCNGC	2 cut(s)	527, 530
FspBI	CTAG	1 cut(s)	35
GlaI	GCGC	1 cut(s)	401
GluI	GCNGC	2 cut(s)	527, 530
HaeII	RGCGCY	1 cut(s)	403
HaeIII	GGCC	1 cut(s)	305
HhaI	GCGC	1 cut(s)	402
Hin1II	CATG	2 cut(s)	14, 197
Hin6I	GCGC	1 cut(s)	400
HinP1I	GCGC	1 cut(s)	400
HinfI	GANTC	2 cut(s)	345, 437
Hpy188I	TCNGA	3 cut(s)	73, 94, 649
Hpy188III	TCNNGA	3 cut(s)	49, 157, 536
HpyAV	CCTTC	4 cut(s)	78, 358, 490, 509
HpyCH4III	ACNGT	5 cut(s)	171, 243, 466, 594, 691
HpyCH4V	TGCA	8 cut(s)	213, 239, 351, 460, 532, 581, 628, 644
HpyF10VI	GCNNNNNNNGC	3 cut(s)	275, 466, 587
HpyF3I	CTNAG	2 cut(s)	47, 270
Hsp92II	CATG	2 cut(s)	14, 197
HspAI	GCGC	1 cut(s)	400
Kzo9I	GATC	4 cut(s)	82, 130, 428, 770
Lsp1109I	GCAGC	2 cut(s)	516, 538
LweI	GCATC	3 cut(s)	256, 541, 653
MaeI	CTAG	1 cut(s)	35
MaeIII	GTNAC	1 cut(s)	781
MalI	GATC	4 cut(s)	84, 132, 430, 772
MboI	GATC	4 cut(s)	82, 130, 428, 770
MboII	GAAGA	5 cut(s)	175, 576, 594, 682, 691
MflI	RGATCY	2 cut(s)	130, 770
MhlI	GDGCHC	3 cut(s)	78, 471, 592
MluCI	AATT	5 cut(s)	19, 247, 312, 419, 657
MlyI	GAGTC	1 cut(s)	354
MseI	TTAA	1 cut(s)	246
MslI	CAYNNNNRTG	1 cut(s)	198
MspA1I	CMGCKG	1 cut(s)	529
Mva1269I	GAATGC	1 cut(s)	702
MwoI	GCNNNNNNNGC	3 cut(s)	275, 466, 587
NdeI	CATATG	1 cut(s)	98
NdeII	GATC	4 cut(s)	82, 130, 428, 770
NlaIII	CATG	2 cut(s)	14, 197
NlaIV	GGNNCC	1 cut(s)	481
PaeR7I	CTCGAG	1 cut(s)	536
PctI	GAATGC	1 cut(s)	702
PfeI	GAWTC	1 cut(s)	437
PkrI	GCNGC	2 cut(s)	528, 531
PleI	GAGTC	1 cut(s)	353
PpsI	GAGTC	1 cut(s)	353
PsiI	TTATAA	1 cut(s)	126
Psp124BI	GAGCTC	1 cut(s)	78
PspN4I	GGNNCC	1 cut(s)	481
PspPI	GGNCC	1 cut(s)	554
PstI	CTGCAG	1 cut(s)	353
PsuI	RGATCY	2 cut(s)	130, 770
PvuII	CAGCTG	1 cut(s)	529
RsaI	GTAC	3 cut(s)	382, 487, 764
RsaNI	GTAC	3 cut(s)	381, 486, 763
RseI	CAYNNNNRTG	1 cut(s)	198
SacI	GAGCTC	1 cut(s)	78
SaqAI	TTAA	1 cut(s)	246
SatI	GCNGC	2 cut(s)	527, 530
Sau3AI	GATC	4 cut(s)	82, 130, 428, 770
Sau96I	GGNCC	1 cut(s)	554
SchI	GAGTC	1 cut(s)	354
SduI	GDGCHC	3 cut(s)	78, 471, 592
SetI	ASST	5 cut(s)	78, 531, 556, 580, 764
SfaNI	GCATC	3 cut(s)	256, 541, 653
SfcI	CTRYAG	1 cut(s)	349
Sfr274I	CTCGAG	1 cut(s)	536
SinI	GGWCC	1 cut(s)	554
SlaI	CTCGAG	1 cut(s)	536
SmiMI	CAYNNNNRTG	1 cut(s)	198
SmlI	CTYRAG	4 cut(s)	77, 470, 536, 766
SmoI	CTYRAG	4 cut(s)	77, 470, 536, 766
Sse9I	AATT	5 cut(s)	19, 247, 312, 419, 657
SspI	AATATT	1 cut(s)	449
SspMI	CTAG	1 cut(s)	35
SstI	GAGCTC	1 cut(s)	78
StyI	CCWWGG	1 cut(s)	403
TaaI	ACNGT	5 cut(s)	171, 243, 466, 594, 691
TaqI	TCGA	2 cut(s)	431, 537
TasI	AATT	5 cut(s)	19, 247, 312, 419, 657
TatI	WGTACW	1 cut(s)	380
TfiI	GAWTC	1 cut(s)	437
Tru1I	TTAA	1 cut(s)	246
Tru9I	TTAA	1 cut(s)	246
TscAI	CASTG	1 cut(s)	246
TseI	GCWGC	2 cut(s)	526, 529
TspDTI	ATGAA	3 cut(s)	176, 413, 695
TspRI	CASTG	1 cut(s)	246
VpaK11BI	GGWCC	1 cut(s)	554
XagI	CCTNNNNNAGG	1 cut(s)	260
XapI	RAATTY	1 cut(s)	419
XcmI	CCANNNNNNNNNTGG	1 cut(s)	313
XhoI	CTCGAG	1 cut(s)	536
XspI	CTAG	1 cut(s)	35

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