Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0021133

Physical Location & Seq

Genomic Coordinates Forward (+)

3895219 .. 3896974

Gene Structure 1756 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG026200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 729 bp

ATGCCTGGACACGAAGTTGCCAACAATGACATGATGATCAATGAGTATGAACAGAAGCAAGTGAATGCTGTTCCTGATGGATTTAACTTTCAGTATCTCAAAATTTACTATGGAAAGCTCTTCCCATATGAGGAAATGTTTAAGTGGATGTCCTATGCAAATGATGGCAAGCATCCTGCATGCAACCAATCCTACTTTGGCCGGAGAGAGTTTTCTTTCACACTGGATAATGATGTTTATCTGCGGTACAAAACTTTCAACTCCGTGTCTGAGCTTGAAAATTCTATCAAAGAGAAGTGCCCCGTCAAAATAGATTTTGGGCCTGTGTACAATGTTGATCCTGCAAAGAGGCATTCCTATGCTCAAAGTGGTTGCTACCCCGAGGAGAGGGAACTGATTTTTGATATAGATATGTCAGATTACGATGATGTTAGATACTGCTGCTCAGGAGCTGATGTGTGCCTGGAGTGCTGGCCGCTTATGACAATTGCTATCAAAGTGATTGACACTGCCCTTCGAGATGACTTTGGTTTCAATCACATTCTCTGGGTATACAGTGGCCGACGTGGTGTTCATTGTTGGGTTTGTGATGGGAAAGCTAGAAGGCTCACAAATGAACTGAGAGCAGCTATTGCTGACTATTTTCGTGTCTACAAGGTGGTATACTGTTTGAAATACATTTGGGTTAAAAGACACTTATATGTTATACAATTTTGTGAAAGTTGTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003824 GO:0003896 GO:0003899 GO:0005488 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:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0030894 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0032993 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:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 map00230 map00240 map01100 map03030

Pfam Domains

Protein Families

DNA_primase_S

Protein Analysis

242

Amino Acids

28.59

Weight (kDa)

5.89

Isoelectric Point (pI)

48.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_S	PF01896	134 - 219	1.5e-31	DNA primase small subunit

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: OG0021133)

Species	Orthologous Gene IDs
malus_domestica	MD14G1127500.v1.1
rosa_chinensis	RchiOBHm_Chr6g0245381
rosa_multiflora	Rmu_sc0000471.1_g000004 Rmu_sc0002202.1_g000012
rosa_samantha	Rh6BG026200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	3 cut(s)	552, 651, 663
AciI	CCGC	2 cut(s)	244, 476
AclWI	GGATC	1 cut(s)	332
AcoI	YGGCCR	3 cut(s)	199, 473, 559
AcsI	RAATTY	2 cut(s)	102, 280
AfaI	GTAC	2 cut(s)	248, 329
AfiI	CCNNNNNNNGG	2 cut(s)	130, 387
AgsI	TTSAA	4 cut(s)	259, 278, 535, 673
AjiI	CACGTC	1 cut(s)	566
AjnI	CCWGG	2 cut(s)	4, 462
AluBI	AGCT	5 cut(s)	118, 274, 452, 599, 629
AluI	AGCT	5 cut(s)	118, 274, 452, 599, 629
AlwI	GGATC	1 cut(s)	332
AlwNI	CAGNNNCTG	1 cut(s)	452
Ama87I	CYCGRG	1 cut(s)	380
AoxI	GGCC	4 cut(s)	199, 320, 473, 559
ApeKI	GCWGC	2 cut(s)	441, 626
ApoI	RAATTY	2 cut(s)	102, 280
AspS9I	GGNCC	1 cut(s)	320
AvaI	CYCGRG	1 cut(s)	380
BaeGI	GKGCMC	1 cut(s)	302
BbvI	GCAGC	2 cut(s)	428, 638
BccI	CCATC	3 cut(s)	71, 158, 584
BciT130I	CCWGG	2 cut(s)	6, 464
BclI	TGATCA	1 cut(s)	36
BfaI	CTAG	1 cut(s)	600
BisI	GCNGC	3 cut(s)	442, 476, 627
BlsI	GCNGC	3 cut(s)	443, 477, 628
Bme1390I	CCNGG	2 cut(s)	6, 464
BmeT110I	CYCGRG	1 cut(s)	380
BmgBI	CACGTC	1 cut(s)	566
BmgT120I	GGNCC	1 cut(s)	320
BmrFI	CCNGG	2 cut(s)	6, 464
BmsI	GCATC	1 cut(s)	181
BpmI	CTGGAG	1 cut(s)	485
Bpu10I	CCTNAGC	1 cut(s)	445
BsaBI	GATNNNNATC	1 cut(s)	237
BsaJI	CCNNGG	1 cut(s)	381
BsaXI	ACNNNNNCTCC	2 cut(s)	441, 471
Bsc4I	CCNNNNNNNGG	2 cut(s)	130, 387
Bse1I	ACTGG	1 cut(s)	228
Bse8I	GATNNNNATC	1 cut(s)	237
BseBI	CCWGG	2 cut(s)	6, 464
BseDI	CCNNGG	1 cut(s)	381
BseGI	GGATG	2 cut(s)	153, 172
BseJI	GATNNNNATC	1 cut(s)	237
BseLI	CCNNNNNNNGG	2 cut(s)	130, 387
BseMII	CTCAG	3 cut(s)	261, 459, 611
BseNI	ACTGG	1 cut(s)	228
BseRI	GAGGAG	1 cut(s)	398
BseSI	GKGCMC	1 cut(s)	302
BseXI	GCAGC	2 cut(s)	428, 638
BshFI	GGCC	4 cut(s)	201, 322, 475, 561
BsiHKCI	CYCGRG	1 cut(s)	380
BsiSI	CCGG	1 cut(s)	202
BslI	CCNNNNNNNGG	2 cut(s)	130, 387
BsmI	GAATGC	2 cut(s)	70, 352
BsnI	GGCC	4 cut(s)	201, 322, 475, 561
BsoBI	CYCGRG	1 cut(s)	380
Bsp1286I	GDGCHC	1 cut(s)	302
Bsp1407I	TGTACA	1 cut(s)	327
Bsp143I	GATC	2 cut(s)	36, 337
BspACI	CCGC	2 cut(s)	244, 476
BspANI	GGCC	4 cut(s)	201, 322, 475, 561
BspCNI	CTCAG	3 cut(s)	262, 458, 612
BspPI	GGATC	1 cut(s)	332
BspQI	GCTCTTC	1 cut(s)	125
BsrGI	TGTACA	1 cut(s)	327
BsrI	ACTGG	1 cut(s)	228
BssECI	CCNNGG	1 cut(s)	381
BssMI	GATC	2 cut(s)	36, 337
BssNAI	GTATAC	2 cut(s)	553, 664
Bst1107I	GTATAC	2 cut(s)	553, 664
Bst2UI	CCWGG	2 cut(s)	6, 464
Bst4CI	ACNGT	2 cut(s)	557, 668
Bst6I	CTCTTC	1 cut(s)	125
BstAPI	GCANNNNNTGC	1 cut(s)	632
BstAUI	TGTACA	1 cut(s)	327
BstC8I	GCNNGC	3 cut(s)	170, 181, 473
BstDEI	CTNAG	3 cut(s)	270, 445, 620
BstF5I	GGATG	2 cut(s)	153, 172
BstKTI	GATC	2 cut(s)	39, 340
BstMBI	GATC	2 cut(s)	36, 337
BstMWI	GCNNNNNNNGC	2 cut(s)	468, 632
BstNI	CCWGG	2 cut(s)	6, 464
BstNSI	RCATGY	1 cut(s)	183
BstSCI	CCNGG	2 cut(s)	4, 462
BstSLI	GKGCMC	1 cut(s)	302
BstV1I	GCAGC	2 cut(s)	428, 638
BstZ17I	GTATAC	2 cut(s)	553, 664
BsuRI	GGCC	4 cut(s)	201, 322, 475, 561
BtrI	CACGTC	1 cut(s)	566
BtsCI	GGATG	2 cut(s)	153, 172
BtsI	GCAGTG	1 cut(s)	507
BtsIMutI	CAGTG	3 cut(s)	221, 507, 562
Cac8I	GCNNGC	3 cut(s)	170, 181, 473
CaiI	CAGNNNCTG	1 cut(s)	452
Cfr13I	GGNCC	1 cut(s)	320
Csp6I	GTAC	2 cut(s)	247, 328
CviAII	CATG	2 cut(s)	31, 180
CviQI	GTAC	2 cut(s)	247, 328
DdeI	CTNAG	3 cut(s)	270, 445, 620
DpnI	GATC	2 cut(s)	38, 339
DpnII	GATC	2 cut(s)	36, 337
EaeI	YGGCCR	3 cut(s)	199, 473, 559
Eam1104I	CTCTTC	1 cut(s)	125
EarI	CTCTTC	1 cut(s)	125
Eco88I	CYCGRG	1 cut(s)	380
EcoRII	CCWGG	2 cut(s)	4, 462
FaeI	CATG	2 cut(s)	34, 183
FatI	CATG	2 cut(s)	30, 179
FauNDI	CATATG	1 cut(s)	127
FbaI	TGATCA	1 cut(s)	36
FblI	GTMKAC	3 cut(s)	552, 651, 663
Fnu4HI	GCNGC	3 cut(s)	442, 476, 627
FokI	GGATG	2 cut(s)	159, 160
Fsp4HI	GCNGC	3 cut(s)	442, 476, 627
FspBI	CTAG	1 cut(s)	600
GluI	GCNGC	3 cut(s)	442, 476, 627
GsuI	CTGGAG	1 cut(s)	485
HaeIII	GGCC	4 cut(s)	201, 322, 475, 561
HapII	CCGG	1 cut(s)	202
Hin1II	CATG	2 cut(s)	34, 183
HpaII	CCGG	1 cut(s)	202
Hpy166II	GTNNAC	4 cut(s)	328, 553, 652, 664
Hpy188I	TCNGA	2 cut(s)	271, 418
Hpy188III	TCNNGA	3 cut(s)	74, 447, 518
Hpy8I	GTNNAC	4 cut(s)	328, 553, 652, 664
Hpy99I	CGWCG	1 cut(s)	567
HpyAV	CCTTC	2 cut(s)	524, 597
HpyCH4III	ACNGT	2 cut(s)	557, 668
HpyCH4IV	ACGT	1 cut(s)	565
HpyCH4V	TGCA	4 cut(s)	158, 179, 183, 344
HpyF10VI	GCNNNNNNNGC	2 cut(s)	468, 632
HpyF3I	CTNAG	3 cut(s)	270, 445, 620
HpySE526I	ACGT	1 cut(s)	565
Hsp92II	CATG	2 cut(s)	34, 183
Ksp22I	TGATCA	1 cut(s)	36
Kzo9I	GATC	2 cut(s)	36, 337
LguI	GCTCTTC	1 cut(s)	125
LmnI	GCTCC	1 cut(s)	449
Lsp1109I	GCAGC	2 cut(s)	428, 638
LweI	GCATC	1 cut(s)	181
MaeI	CTAG	1 cut(s)	600
MaeII	ACGT	1 cut(s)	565
MalI	GATC	2 cut(s)	38, 339
MboI	GATC	2 cut(s)	36, 337
MboII	GAAGA	1 cut(s)	112
MfeI	CAATTG	1 cut(s)	486
MhlI	GDGCHC	1 cut(s)	302
MluCI	AATT	4 cut(s)	102, 280, 486, 710
MnlI	CCTC	4 cut(s)	124, 342, 376, 381
MseI	TTAA	4 cut(s)	84, 141, 687, 727
MslI	CAYNNNNRTG	2 cut(s)	357, 699
MspI	CCGG	1 cut(s)	202
MspR9I	CCNGG	2 cut(s)	6, 464
MunI	CAATTG	1 cut(s)	486
Mva1269I	GAATGC	2 cut(s)	70, 352
MvaI	CCWGG	2 cut(s)	6, 464
MwoI	GCNNNNNNNGC	2 cut(s)	468, 632
NdeI	CATATG	1 cut(s)	127
NdeII	GATC	2 cut(s)	36, 337
NlaIII	CATG	2 cut(s)	34, 183
NspI	RCATGY	1 cut(s)	183
PaeI	GCATGC	1 cut(s)	183
PciSI	GCTCTTC	1 cut(s)	125
PctI	GAATGC	2 cut(s)	70, 352
PkrI	GCNGC	3 cut(s)	443, 477, 628
Psp6I	CCWGG	2 cut(s)	4, 462
PspGI	CCWGG	2 cut(s)	4, 462
PspPI	GGNCC	1 cut(s)	320
PstNI	CAGNNNCTG	1 cut(s)	452
RsaI	GTAC	2 cut(s)	248, 329
RsaNI	GTAC	2 cut(s)	247, 328
RseI	CAYNNNNRTG	2 cut(s)	357, 699
SapI	GCTCTTC	1 cut(s)	125
SaqAI	TTAA	4 cut(s)	84, 141, 687, 727
SatI	GCNGC	3 cut(s)	442, 476, 627
Sau3AI	GATC	2 cut(s)	36, 337
Sau96I	GGNCC	1 cut(s)	320
ScrFI	CCNGG	2 cut(s)	6, 464
SduI	GDGCHC	1 cut(s)	302
SetI	ASST	7 cut(s)	120, 276, 454, 568, 601, 631, 660
SfaNI	GCATC	1 cut(s)	181
SmiMI	CAYNNNNRTG	2 cut(s)	357, 699
SphI	GCATGC	1 cut(s)	183
Sse9I	AATT	4 cut(s)	102, 280, 486, 710
SsiI	CCGC	2 cut(s)	244, 476
SspMI	CTAG	1 cut(s)	600
StyD4I	CCNGG	2 cut(s)	4, 462
TaaI	ACNGT	2 cut(s)	557, 668
TaiI	ACGT	1 cut(s)	568
TaqI	TCGA	1 cut(s)	517
TasI	AATT	4 cut(s)	102, 280, 486, 710
TatI	WGTACW	1 cut(s)	327
TauI	GCSGC	1 cut(s)	478
Tru1I	TTAA	4 cut(s)	84, 141, 687, 727
Tru9I	TTAA	4 cut(s)	84, 141, 687, 727
TscAI	CASTG	3 cut(s)	228, 514, 562
TseI	GCWGC	2 cut(s)	441, 626
TspDTI	ATGAA	3 cut(s)	63, 563, 630
TspGWI	ACGGA	1 cut(s)	253
TspRI	CASTG	3 cut(s)	228, 514, 562
XapI	RAATTY	2 cut(s)	102, 280
XceI	RCATGY	1 cut(s)	183
XcmI	CCANNNNNNNNNTGG	1 cut(s)	194
XmiI	GTMKAC	3 cut(s)	552, 651, 663
XspI	CTAG	1 cut(s)	600

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