Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0015707

Physical Location & Seq

Genomic Coordinates Forward (+)

45469601 .. 45477970

Gene Structure 8370 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG220900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1029 bp

ATGAAATCGGAGTCAAGCACGGATGCTGGTGCTGCTGGTCTGGAGAACAAATCAAGTTCATCATCTCAGGCGGATGAGATTGAGCAGGAGGTGAGTTTGGAGAAGCAGAGGAGAGAAGAGGTATCTCTGTATGATGATGTTTCCAAGGAACCAAAGGTTGGGGAGTTCATTGTAAAGTATCCCTCTTCTGAGTCACCGATATTCCACAAATGTTCTTGGAGACGTGATTCTCGAAATGACTCTGATGGTGTGCCAAGATTCCCACCTCTTGTGATCCCTAAAGATGCTGGAGCTGATCGAAATCCTCTGCACTCGGTAACTGGCTTACCTCCTGTTCCACTCAATATTATAGTGGGATATGCTGTCCCTTTAATAGCAGATGCTCACGAGAGAGAGACACGCAAGCGAGAACCGGGATATGATGAGGTCGAGTACCGAAATATGATGAGAGGTCACACATGGCAGAATTTGGTTTTGTTTGCCTACAAGAAAGTTGATATTTCAGAACTCGAGAGTGTAATGGACAAACTGACCCAGGTTGCGCGTTCCACGAGTCAATCTTTACCCACTGCTCAGAGAGGAGCATCATCCAAAGCATGGAGGGAGAATGCAACTGGGTCTCTTTCAAGGTTGGTGCTGAGAGGTTTGACAAAGAATATGCATATAGCATACGCCACAATTATGGAAGAGAAGAAGAAAGAATGGATTACATGCCTTATTCCTGTTAAAAGATCATCTCATCTACTCCTGGTGTTGAATATCATCATGGATGCCCCATATCAACATTTCAGTGAAGAGAATCTGACAGCTGCTCTGAGTAGAATGGAAGTTAACAGTCGTGCTCTTGGCGATGTAATGAAAGTTTGGAATAAGCATTATCAGTTGGCATGCACCGTAACGTTTGAAGCTGTCCAGGGGACATCATGCGAAGCTGGGATTAACCATCCAAATCAATACTTCTCTGACAGCCAAATAATTATGAAGTCAATGAATCAATCTACAGCGAAGGACATGCAAATGCAAATATAA

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:0003887 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005658 GO:0005694 GO:0006139 GO:0006259 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0030894 GO:0031974 GO:0031981 GO:0032991 GO:0032993 GO:0034061 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:0071897 GO:0090304 GO:0097159 GO:0140097 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_lrg

Protein Analysis

342

Amino Acids

38.46

Weight (kDa)

6.53

Isoelectric Point (pI)

56.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_lrg	PF04104	259 - 320	2.5e-11	Eukaryotic and archaeal DNA primase, large subunit C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0015707)

Species	Orthologous Gene IDs
malus_domestica	MD16G1122100.v1.1
pyrus_communis	pycom16g10460
rosa_chinensis	RchiOBHm_Chr4g0417231 RchiOBHm_Chr4g0417241 RchiOBHm_Chr4g0417251 RchiOBHm_Chr4g0417261
rosa_laevigata	RLG00000007921
rosa_multiflora	Rmu_sc0000646.1_g000011 Rmu_sc0002370.1_g000020
rosa_samantha	Rh4AG209800 Rh4CG220900 Rh4DG207500 Rh4DG207600 Rh4DG207700
rosa_wichuraiana	Rw4G017730 Rw4G017740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	2 cut(s)	158, 597
AccII	CGCG	1 cut(s)	544
AciI	CCGC	1 cut(s)	71
AclI	AACGTT	1 cut(s)	899
AclWI	GGATC	1 cut(s)	268
AcsI	RAATTY	1 cut(s)	466
AfaI	GTAC	1 cut(s)	434
AfiI	CCNNNNNNNGG	2 cut(s)	158, 597
AgsI	TTSAA	3 cut(s)	627, 757, 905
AjiI	CACGTC	1 cut(s)	224
AjnI	CCWGG	3 cut(s)	534, 747, 912
AjuI	GAANNNNNNNTTGG	2 cut(s)	141, 173
AluBI	AGCT	4 cut(s)	293, 809, 908, 932
AluI	AGCT	4 cut(s)	293, 809, 908, 932
Alw21I	GWGCWC	1 cut(s)	844
Alw26I	GTCTC	3 cut(s)	214, 389, 624
AlwI	GGATC	1 cut(s)	268
Ama87I	CYCGRG	1 cut(s)	509
ApeKI	GCWGC	2 cut(s)	32, 809
ApoI	RAATTY	1 cut(s)	466
AspLEI	GCGC	1 cut(s)	544
AsuC2I	CCSGG	1 cut(s)	414
AsuHPI	GGTGA	2 cut(s)	103, 186
AvaI	CYCGRG	1 cut(s)	509
BauI	CACGAG	2 cut(s)	386, 550
Bbv12I	GWGCWC	1 cut(s)	844
BbvI	GCAGC	2 cut(s)	19, 796
BccI	CCATC	2 cut(s)	239, 951
BcgI	CGANNNNNNTGC	2 cut(s)	994, 1028
BciT130I	CCWGG	3 cut(s)	536, 749, 914
BciVI	GTATCC	1 cut(s)	189
BcnI	CCSGG	1 cut(s)	414
BcoDI	GTCTC	3 cut(s)	214, 389, 624
BfmI	CTRYAG	1 cut(s)	999
BfuI	GTATCC	1 cut(s)	189
BisI	GCNGC	2 cut(s)	33, 810
BlsI	GCNGC	2 cut(s)	34, 811
Bme1390I	CCNGG	4 cut(s)	414, 536, 749, 914
BmeT110I	CYCGRG	1 cut(s)	509
BmgBI	CACGTC	1 cut(s)	224
BmiI	GGNNCC	1 cut(s)	150
BmrFI	CCNGG	4 cut(s)	414, 536, 749, 914
BmrI	ACTGGG	1 cut(s)	624
BmsI	GCATC	5 cut(s)	13, 274, 370, 593, 760
BmuI	ACTGGG	1 cut(s)	624
BpmI	CTGGAG	2 cut(s)	62, 309
BpuMI	CCSGG	1 cut(s)	414
BsaBI	GATNNNNATC	1 cut(s)	300
BsaI	GGTCTC	1 cut(s)	624
BsaJI	CCNNGG	3 cut(s)	144, 534, 913
Bsc4I	CCNNNNNNNGG	2 cut(s)	158, 597
Bse1I	ACTGG	2 cut(s)	325, 619
Bse8I	GATNNNNATC	1 cut(s)	300
BseBI	CCWGG	3 cut(s)	536, 749, 914
BseDI	CCNNGG	3 cut(s)	144, 534, 913
BseGI	GGATG	5 cut(s)	28, 79, 587, 775, 943
BseJI	GATNNNNATC	1 cut(s)	300
BseLI	CCNNNNNNNGG	2 cut(s)	158, 597
BseMII	CTCAG	5 cut(s)	80, 180, 587, 629, 806
BseNI	ACTGG	2 cut(s)	325, 619
BseRI	GAGGAG	2 cut(s)	124, 594
BseXI	GCAGC	2 cut(s)	19, 796
BseYI	CCCAGC	1 cut(s)	932
BsgI	GTGCAG	1 cut(s)	293
Bsh1236I	CGCG	1 cut(s)	544
BsiHKAI	GWGCWC	1 cut(s)	844
BsiHKCI	CYCGRG	1 cut(s)	509
BsiSI	CCGG	1 cut(s)	413
BslFI	GGGAC	2 cut(s)	350, 931
BslI	CCNNNNNNNGG	2 cut(s)	158, 597
BsmAI	GTCTC	3 cut(s)	214, 389, 624
BsmBI	CGTCTC	1 cut(s)	214
BsmFI	GGGAC	2 cut(s)	350, 931
BsmI	GAATGC	1 cut(s)	613
Bso31I	GGTCTC	1 cut(s)	624
BsoBI	CYCGRG	1 cut(s)	509
Bsp1286I	GDGCHC	1 cut(s)	844
Bsp143I	GATC	3 cut(s)	273, 295, 731
BspACI	CCGC	1 cut(s)	71
BspCNI	CTCAG	5 cut(s)	79, 181, 586, 630, 807
BspFNI	CGCG	1 cut(s)	544
BspLI	GGNNCC	1 cut(s)	150
BspPI	GGATC	1 cut(s)	268
BspTNI	GGTCTC	1 cut(s)	624
BsrI	ACTGG	2 cut(s)	325, 619
BssECI	CCNNGG	3 cut(s)	144, 534, 913
BssMI	GATC	3 cut(s)	273, 295, 731
BssSI	CACGAG	2 cut(s)	386, 550
BssT1I	CCWWGG	1 cut(s)	144
Bst2BI	CACGAG	2 cut(s)	386, 550
Bst2UI	CCWGG	3 cut(s)	536, 749, 914
Bst4CI	ACNGT	2 cut(s)	836, 895
Bst6I	CTCTTC	4 cut(s)	111, 190, 681, 789
BstC8I	GCNNGC	2 cut(s)	404, 889
BstDEI	CTNAG	5 cut(s)	66, 189, 573, 638, 815
BstF5I	GGATG	5 cut(s)	28, 79, 587, 775, 943
BstFNI	CGCG	1 cut(s)	544
BstHHI	GCGC	1 cut(s)	544
BstKTI	GATC	3 cut(s)	276, 298, 734
BstMAI	GTCTC	3 cut(s)	214, 389, 624
BstMBI	GATC	3 cut(s)	273, 295, 731
BstMWI	GCNNNNNNNGC	1 cut(s)	32
BstNI	CCWGG	3 cut(s)	536, 749, 914
BstNSI	RCATGY	3 cut(s)	714, 891, 1015
BstSCI	CCNGG	4 cut(s)	412, 534, 747, 912
BstSFI	CTRYAG	1 cut(s)	999
BstUI	CGCG	1 cut(s)	544
BstV1I	GCAGC	2 cut(s)	19, 796
BstXI	CCANNNNNNTGG	1 cut(s)	682
BsuI	GTATCC	1 cut(s)	189
BtgZI	GCGATG	1 cut(s)	864
BtrI	CACGTC	1 cut(s)	224
BtsCI	GGATG	5 cut(s)	28, 79, 587, 775, 943
BtsI	GCAGTG	1 cut(s)	567
BtsIMutI	CAGTG	2 cut(s)	567, 796
Cac8I	GCNNGC	2 cut(s)	404, 889
CfoI	GCGC	1 cut(s)	544
Csp6I	GTAC	1 cut(s)	433
CviAII	CATG	7 cut(s)	459, 597, 711, 766, 888, 924, 1012
CviJI	RGCY	6 cut(s)	293, 324, 809, 908, 932, 969
CviKI_1	RGCY	6 cut(s)	293, 324, 809, 908, 932, 969
CviQI	GTAC	1 cut(s)	433
DdeI	CTNAG	5 cut(s)	66, 189, 573, 638, 815
DpnI	GATC	3 cut(s)	275, 297, 733
DpnII	GATC	3 cut(s)	273, 295, 731
Eam1104I	CTCTTC	4 cut(s)	111, 190, 681, 789
EarI	CTCTTC	4 cut(s)	111, 190, 681, 789
EciI	GGCGGA	1 cut(s)	86
Eco130I	CCWWGG	1 cut(s)	144
Eco31I	GGTCTC	1 cut(s)	624
Eco88I	CYCGRG	1 cut(s)	509
EcoRII	CCWGG	3 cut(s)	534, 747, 912
EcoT14I	CCWWGG	1 cut(s)	144
EcoT22I	ATGCAT	1 cut(s)	663
ErhI	CCWWGG	1 cut(s)	144
Esp3I	CGTCTC	1 cut(s)	214
FaeI	CATG	7 cut(s)	462, 600, 714, 769, 891, 927, 1015
FaqI	GGGAC	2 cut(s)	350, 931
FatI	CATG	7 cut(s)	458, 596, 710, 765, 887, 923, 1011
Fnu4HI	GCNGC	2 cut(s)	33, 810
FokI	GGATG	5 cut(s)	35, 86, 574, 782, 930
Fsp4HI	GCNGC	2 cut(s)	33, 810
GlaI	GCGC	1 cut(s)	543
GluI	GCNGC	2 cut(s)	33, 810
GsaI	CCCAGC	1 cut(s)	936
GsuI	CTGGAG	2 cut(s)	62, 309
HapII	CCGG	1 cut(s)	413
HhaI	GCGC	1 cut(s)	544
Hin1II	CATG	7 cut(s)	462, 600, 714, 769, 891, 927, 1015
Hin6I	GCGC	1 cut(s)	542
HinP1I	GCGC	1 cut(s)	542
HincII	GTYRAC	1 cut(s)	832
HindII	GTYRAC	1 cut(s)	832
HinfI	GANTC	8 cut(s)	11, 191, 227, 239, 258, 553, 799, 991
HpaI	GTTAAC	1 cut(s)	832
HpaII	CCGG	1 cut(s)	413
HphI	GGTGA	2 cut(s)	103, 186
Hpy166II	GTNNAC	1 cut(s)	832
Hpy188I	TCNGA	8 cut(s)	10, 190, 244, 505, 576, 804, 816, 964
Hpy188III	TCNNGA	4 cut(s)	41, 231, 386, 511
Hpy8I	GTNNAC	1 cut(s)	832
HpyAV	CCTTC	1 cut(s)	1000
HpyCH4III	ACNGT	2 cut(s)	836, 895
HpyCH4IV	ACGT	2 cut(s)	223, 899
HpyCH4V	TGCA	6 cut(s)	310, 611, 661, 891, 1015, 1021
HpyF10VI	GCNNNNNNNGC	1 cut(s)	32
HpyF3I	CTNAG	5 cut(s)	66, 189, 573, 638, 815
HpySE526I	ACGT	2 cut(s)	223, 899
Hsp92II	CATG	7 cut(s)	462, 600, 714, 769, 891, 927, 1015
HspAI	GCGC	1 cut(s)	542
KspAI	GTTAAC	1 cut(s)	832
Kzo9I	GATC	3 cut(s)	273, 295, 731
LmnI	GCTCC	2 cut(s)	290, 581
Lsp1109I	GCAGC	2 cut(s)	19, 796
LweI	GCATC	5 cut(s)	13, 274, 370, 593, 760
MaeII	ACGT	2 cut(s)	223, 899
MaeIII	GTNAC	4 cut(s)	192, 316, 452, 895
MalI	GATC	3 cut(s)	275, 297, 733
MboI	GATC	3 cut(s)	273, 295, 731
MboII	GAAGA	6 cut(s)	128, 177, 698, 703, 706, 806
MhlI	GDGCHC	1 cut(s)	844
MluCI	AATT	3 cut(s)	466, 678, 975
MlyI	GAGTC	4 cut(s)	20, 200, 233, 562
Mph1103I	ATGCAT	1 cut(s)	663
MseI	TTAA	4 cut(s)	371, 726, 831, 939
MslI	CAYNNNNRTG	3 cut(s)	680, 789, 1016
MspA1I	CMGCKG	1 cut(s)	809
MspI	CCGG	1 cut(s)	413
MspR9I	CCNGG	4 cut(s)	414, 536, 749, 914
Mva1269I	GAATGC	1 cut(s)	613
MvaI	CCWGG	3 cut(s)	536, 749, 914
MvnI	CGCG	1 cut(s)	544
MwoI	GCNNNNNNNGC	1 cut(s)	32
NciI	CCSGG	1 cut(s)	414
NdeII	GATC	3 cut(s)	273, 295, 731
NlaIII	CATG	7 cut(s)	462, 600, 714, 769, 891, 927, 1015
NlaIV	GGNNCC	1 cut(s)	150
NmuCI	GTSAC	2 cut(s)	192, 452
NsiI	ATGCAT	1 cut(s)	663
NspI	RCATGY	3 cut(s)	714, 891, 1015
PaeI	GCATGC	1 cut(s)	891
PaeR7I	CTCGAG	1 cut(s)	509
PcsI	WCGNNNNNNNCGW	1 cut(s)	229
PctI	GAATGC	1 cut(s)	613
PfeI	GAWTC	4 cut(s)	227, 258, 799, 991
PflMI	CCANNNNNTGG	2 cut(s)	158, 597
PkrI	GCNGC	2 cut(s)	34, 811
PleI	GAGTC	4 cut(s)	19, 199, 233, 561
PpsI	GAGTC	4 cut(s)	19, 199, 233, 561
Psp1406I	AACGTT	1 cut(s)	899
Psp6I	CCWGG	3 cut(s)	534, 747, 912
PspFI	CCCAGC	1 cut(s)	932
PspGI	CCWGG	3 cut(s)	534, 747, 912
PspN4I	GGNNCC	1 cut(s)	150
PvuII	CAGCTG	1 cut(s)	809
RsaI	GTAC	1 cut(s)	434
RsaNI	GTAC	1 cut(s)	433
RseI	CAYNNNNRTG	3 cut(s)	680, 789, 1016
SaqAI	TTAA	4 cut(s)	371, 726, 831, 939
SatI	GCNGC	2 cut(s)	33, 810
Sau3AI	GATC	3 cut(s)	273, 295, 731
SchI	GAGTC	4 cut(s)	20, 200, 233, 562
ScrFI	CCNGG	4 cut(s)	414, 536, 749, 914
SduI	GDGCHC	1 cut(s)	844
SfaNI	GCATC	5 cut(s)	13, 274, 370, 593, 760
SfcI	CTRYAG	1 cut(s)	999
Sfr274I	CTCGAG	1 cut(s)	509
SlaI	CTCGAG	1 cut(s)	509
SmiMI	CAYNNNNRTG	3 cut(s)	680, 789, 1016
SmlI	CTYRAG	1 cut(s)	509
SmoI	CTYRAG	1 cut(s)	509
SphI	GCATGC	1 cut(s)	891
Sse9I	AATT	3 cut(s)	466, 678, 975
SsiI	CCGC	1 cut(s)	71
SspI	AATATT	1 cut(s)	346
StyD4I	CCNGG	4 cut(s)	412, 534, 747, 912
StyI	CCWWGG	1 cut(s)	144
TaaI	ACNGT	2 cut(s)	836, 895
TaiI	ACGT	2 cut(s)	226, 902
TaqI	TCGA	4 cut(s)	232, 298, 429, 510
TasI	AATT	3 cut(s)	466, 678, 975
TfiI	GAWTC	4 cut(s)	227, 258, 799, 991
Tru1I	TTAA	4 cut(s)	371, 726, 831, 939
Tru9I	TTAA	4 cut(s)	371, 726, 831, 939
TscAI	CASTG	2 cut(s)	574, 796
TseFI	GTSAC	2 cut(s)	192, 452
TseI	GCWGC	2 cut(s)	32, 809
Tsp45I	GTSAC	2 cut(s)	192, 452
TspDTI	ATGAA	6 cut(s)	17, 48, 157, 872, 995, 1004
TspGWI	ACGGA	1 cut(s)	35
TspRI	CASTG	2 cut(s)	574, 796
Van91I	CCANNNNNTGG	2 cut(s)	158, 597
XapI	RAATTY	1 cut(s)	466
XceI	RCATGY	3 cut(s)	714, 891, 1015
XhoI	CTCGAG	1 cut(s)	509
Zsp2I	ATGCAT	1 cut(s)	663

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