Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0015707

Physical Location & Seq

Genomic Coordinates Forward (+)

39881308 .. 39885891

Gene Structure 4584 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G017740.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1011 bp

ATGGACGCTGCCCTATTTCGTCACCGTTTTCGCAATGAAAAGCCTGAAGCTCAAAATTTGGTTTTGTTTGCCTACAAGAAAGTTGATATTTCAGAACTCGAGAGTGTAATGGACAAACTGACCCAGGTTGCGCGTTCCACGAGTCAATCTTTACCCACTGCTGATGCCATATTTTACAAGGTACCATTTGAAGAAGTTCCAGAACTTGTCGGTAGCCGTAGAGTATTCATCGGCAAGGGGCATGCATATATAGCTATGAGTGGTTTCCCTTGTTGCCACACACATTTGCGCAGTCATCTGTCAAAAGCACTGATGTTGACTAACAGAAATTGGACATCAACTATAGTAGAACAAGAGAAAAATCGGTTGACTCCTATAGTAGAAACCCTATCCACAAGCTACCTGGGTCCGGACTATTCGCAGCCAAAAGAATTTGCTGAGATACCCTTAAGAGACATTGATGACATAGCTAAGAACTCGTTTCCTATGTGCATGCGGCAGCTAGTTGAAAAGCTCAGAGAGGAGCATCATCCAAAGCATGGAGGGAGAATGCAACTGGGTCTCTTTCAAGGTATTTTCCCATACATCCATTATGTCCTGTCTTTAAGTGGTGTTGGGTTGAAGTTGGATGATGCACTTGTTGGTGCTGAGACGTTTGACAAAGAATATGCATATAGCATACGCCACAATTATGGAAGAGAAGAAGAAAGAACGATCATCTCATCTACTCCTGGTGTTGAAGATCATCATGGATGCCCATATCAACATTTCAGTGAAGAGAATCTGACAGCTGCTCTCAGTAGAATGGGAGTTAACGGTTGTGCTCTTGGCGATGTAATGAAAGTTTGGAATAAGCATTATCAGTTGGCATGCACCGTAACGTTTGAAGCTGTCCAGGGGACATCATGTGAAGCTGGGATTAACCATCCAAATCAATACTTCTCTGACAGCCAAATAATTATGAAGTCAATGAATCAATCTACAGCGAAGGACATGCAAATGCAAATATAA

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

336

Amino Acids

38.09

Weight (kDa)

6.31

Isoelectric Point (pI)

42.09

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_lrg_N	PF26466	3 - 112	1.2e-13	Eukaryotic and archaeal DNA primase, large subunit N-terminal domain
DNA_primase_lrg	PF04104	155 - 314	4.5e-37	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

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)
Acc16I	TGCGCA	1 cut(s)	290
Acc65I	GGTACC	1 cut(s)	181
AccB1I	GGYRCC	1 cut(s)	181
AccB7I	CCANNNNNTGG	1 cut(s)	539
AccII	CGCG	1 cut(s)	133
AccIII	TCCGGA	1 cut(s)	409
AciI	CCGC	1 cut(s)	496
AclI	AACGTT	1 cut(s)	881
AcsI	RAATTY	2 cut(s)	55, 431
AcuI	CTGAAG	1 cut(s)	66
AfaI	GTAC	1 cut(s)	183
AfiI	CCNNNNNNNGG	2 cut(s)	409, 539
AflII	CTTAAG	1 cut(s)	448
AgsI	TTSAA	6 cut(s)	191, 509, 569, 622, 740, 887
AjnI	CCWGG	4 cut(s)	123, 402, 730, 894
AluBI	AGCT	9 cut(s)	50, 254, 399, 470, 502, 514, 791, 890, 914
AluI	AGCT	9 cut(s)	50, 254, 399, 470, 502, 514, 791, 890, 914
Alw21I	GWGCWC	1 cut(s)	826
Alw26I	GTCTC	3 cut(s)	447, 566, 644
Ama87I	CYCGRG	1 cut(s)	98
Aor13HI	TCCGGA	1 cut(s)	409
ApeKI	GCWGC	4 cut(s)	8, 421, 499, 791
ApoI	RAATTY	2 cut(s)	55, 431
Asp700I	GAANNNNTTC	1 cut(s)	195
Asp718I	GGTACC	1 cut(s)	181
AspLEI	GCGC	2 cut(s)	133, 291
AspS9I	GGNCC	1 cut(s)	407
AsuHPI	GGTGA	1 cut(s)	14
AvaI	CYCGRG	1 cut(s)	98
AvaII	GGWCC	1 cut(s)	407
BanI	GGYRCC	1 cut(s)	181
BauI	CACGAG	1 cut(s)	139
Bbv12I	GWGCWC	1 cut(s)	826
BbvI	GCAGC	3 cut(s)	433, 511, 778
BccI	CCATC	1 cut(s)	933
BceAI	ACGGC	1 cut(s)	201
BcgI	CGANNNNNNTGC	2 cut(s)	976, 1010
BciT130I	CCWGG	4 cut(s)	125, 404, 732, 896
BcoDI	GTCTC	3 cut(s)	447, 566, 644
BfaI	CTAG	1 cut(s)	503
BfmI	CTRYAG	3 cut(s)	342, 375, 981
BfrI	CTTAAG	1 cut(s)	448
BisI	GCNGC	5 cut(s)	9, 422, 497, 500, 792
BlsI	GCNGC	5 cut(s)	10, 423, 498, 501, 793
Bme1390I	CCNGG	4 cut(s)	125, 404, 732, 896
Bme18I	GGWCC	1 cut(s)	407
BmeT110I	CYCGRG	1 cut(s)	98
BmgT120I	GGNCC	1 cut(s)	407
BmiI	GGNNCC	2 cut(s)	183, 408
BmrFI	CCNGG	4 cut(s)	125, 404, 732, 896
BmrI	ACTGGG	1 cut(s)	566
BmsI	GCATC	4 cut(s)	154, 535, 622, 743
BmuI	ACTGGG	1 cut(s)	566
BsaI	GGTCTC	1 cut(s)	566
BsaJI	CCNNGG	3 cut(s)	123, 403, 895
BsaWI	WCCGGW	1 cut(s)	409
Bsc4I	CCNNNNNNNGG	2 cut(s)	409, 539
Bse1I	ACTGG	1 cut(s)	561
Bse3DI	GCAATG	1 cut(s)	40
BseAI	TCCGGA	1 cut(s)	409
BseBI	CCWGG	4 cut(s)	125, 404, 732, 896
BseDI	CCNNGG	3 cut(s)	123, 403, 895
BseGI	GGATG	5 cut(s)	529, 585, 634, 758, 925
BseLI	CCNNNNNNNGG	2 cut(s)	409, 539
BseMI	GCAATG	1 cut(s)	40
BseMII	CTCAG	4 cut(s)	429, 529, 639, 811
BseNI	ACTGG	1 cut(s)	561
BseRI	GAGGAG	1 cut(s)	536
BseXI	GCAGC	3 cut(s)	433, 511, 778
BseYI	CCCAGC	1 cut(s)	914
Bsh1236I	CGCG	1 cut(s)	133
BshNI	GGYRCC	1 cut(s)	181
BsiHKAI	GWGCWC	1 cut(s)	826
BsiHKCI	CYCGRG	1 cut(s)	98
BsiSI	CCGG	1 cut(s)	410
BslFI	GGGAC	1 cut(s)	913
BslI	CCNNNNNNNGG	2 cut(s)	409, 539
BsmAI	GTCTC	3 cut(s)	447, 566, 644
BsmBI	CGTCTC	1 cut(s)	644
BsmFI	GGGAC	1 cut(s)	913
BsmI	GAATGC	1 cut(s)	555
Bso31I	GGTCTC	1 cut(s)	566
BsoBI	CYCGRG	1 cut(s)	98
Bsp1286I	GDGCHC	1 cut(s)	826
Bsp13I	TCCGGA	1 cut(s)	409
Bsp143I	GATC	2 cut(s)	714, 742
BspACI	CCGC	1 cut(s)	496
BspCNI	CTCAG	4 cut(s)	430, 528, 640, 810
BspEI	TCCGGA	1 cut(s)	409
BspFNI	CGCG	1 cut(s)	133
BspLI	GGNNCC	2 cut(s)	183, 408
BspT107I	GGYRCC	1 cut(s)	181
BspTI	CTTAAG	1 cut(s)	448
BspTNI	GGTCTC	1 cut(s)	566
BsrDI	GCAATG	1 cut(s)	40
BsrI	ACTGG	1 cut(s)	561
BssECI	CCNNGG	3 cut(s)	123, 403, 895
BssMI	GATC	2 cut(s)	714, 742
BssSI	CACGAG	1 cut(s)	139
Bst2BI	CACGAG	1 cut(s)	139
Bst2UI	CCWGG	4 cut(s)	125, 404, 732, 896
Bst4CI	ACNGT	3 cut(s)	26, 818, 877
Bst6I	CTCTTC	2 cut(s)	691, 771
BstAFI	CTTAAG	1 cut(s)	448
BstC8I	GCNNGC	3 cut(s)	243, 494, 871
BstDEI	CTNAG	5 cut(s)	438, 471, 515, 648, 797
BstF5I	GGATG	5 cut(s)	529, 585, 634, 758, 925
BstFNI	CGCG	1 cut(s)	133
BstHHI	GCGC	2 cut(s)	133, 291
BstKTI	GATC	2 cut(s)	717, 745
BstMAI	GTCTC	3 cut(s)	447, 566, 644
BstMBI	GATC	2 cut(s)	714, 742
BstMWI	GCNNNNNNNGC	1 cut(s)	251
BstNI	CCWGG	4 cut(s)	125, 404, 732, 896
BstNSI	RCATGY	4 cut(s)	245, 496, 873, 997
BstSCI	CCNGG	4 cut(s)	123, 402, 730, 894
BstSFI	CTRYAG	3 cut(s)	342, 375, 981
BstUI	CGCG	1 cut(s)	133
BstV1I	GCAGC	3 cut(s)	433, 511, 778
BstXI	CCANNNNNNTGG	1 cut(s)	692
BtgZI	GCGATG	1 cut(s)	846
BtsCI	GGATG	5 cut(s)	529, 585, 634, 758, 925
BtsI	GCAGTG	1 cut(s)	156
BtsIMutI	CAGTG	3 cut(s)	156, 308, 778
Cac8I	GCNNGC	3 cut(s)	243, 494, 871
CfoI	GCGC	2 cut(s)	133, 291
Cfr13I	GGNCC	1 cut(s)	407
CseI	GACGC	1 cut(s)	14
Csp6I	GTAC	1 cut(s)	182
CviAII	CATG	7 cut(s)	242, 493, 539, 749, 870, 906, 994
CviQI	GTAC	1 cut(s)	182
DdeI	CTNAG	5 cut(s)	438, 471, 515, 648, 797
DpnI	GATC	2 cut(s)	716, 744
DpnII	GATC	2 cut(s)	714, 742
Eam1104I	CTCTTC	2 cut(s)	691, 771
EarI	CTCTTC	2 cut(s)	691, 771
Eco31I	GGTCTC	1 cut(s)	566
Eco47I	GGWCC	1 cut(s)	407
Eco57I	CTGAAG	1 cut(s)	66
Eco88I	CYCGRG	1 cut(s)	98
EcoRII	CCWGG	4 cut(s)	123, 402, 730, 894
EcoT22I	ATGCAT	2 cut(s)	247, 673
Esp3I	CGTCTC	1 cut(s)	644
FaeI	CATG	7 cut(s)	245, 496, 542, 752, 873, 909, 997
FaqI	GGGAC	1 cut(s)	913
FatI	CATG	7 cut(s)	241, 492, 538, 748, 869, 905, 993
Fnu4HI	GCNGC	5 cut(s)	9, 422, 497, 500, 792
FokI	GGATG	5 cut(s)	516, 572, 641, 765, 912
Fsp4HI	GCNGC	5 cut(s)	9, 422, 497, 500, 792
FspBI	CTAG	1 cut(s)	503
FspI	TGCGCA	1 cut(s)	290
GlaI	GCGC	2 cut(s)	132, 290
GluI	GCNGC	5 cut(s)	9, 422, 497, 500, 792
GsaI	CCCAGC	1 cut(s)	918
HapII	CCGG	1 cut(s)	410
HgaI	GACGC	1 cut(s)	14
HhaI	GCGC	2 cut(s)	133, 291
Hin1II	CATG	7 cut(s)	245, 496, 542, 752, 873, 909, 997
Hin6I	GCGC	2 cut(s)	131, 289
HinP1I	GCGC	2 cut(s)	131, 289
HincII	GTYRAC	3 cut(s)	318, 369, 814
HindII	GTYRAC	3 cut(s)	318, 369, 814
HinfI	GANTC	4 cut(s)	142, 370, 781, 973
HpaI	GTTAAC	1 cut(s)	814
HpaII	CCGG	1 cut(s)	410
HphI	GGTGA	1 cut(s)	14
Hpy166II	GTNNAC	3 cut(s)	318, 369, 814
Hpy188I	TCNGA	4 cut(s)	94, 518, 786, 946
Hpy188III	TCNNGA	3 cut(s)	100, 200, 410
Hpy8I	GTNNAC	3 cut(s)	318, 369, 814
HpyAV	CCTTC	1 cut(s)	982
HpyCH4III	ACNGT	3 cut(s)	26, 818, 877
HpyCH4IV	ACGT	2 cut(s)	653, 881
HpyCH4V	TGCA	8 cut(s)	245, 492, 553, 635, 671, 873, 997, 1003
HpyF10VI	GCNNNNNNNGC	1 cut(s)	251
HpyF3I	CTNAG	5 cut(s)	438, 471, 515, 648, 797
HpySE526I	ACGT	2 cut(s)	653, 881
Hsp92II	CATG	7 cut(s)	245, 496, 542, 752, 873, 909, 997
HspAI	GCGC	2 cut(s)	131, 289
Kpn2I	TCCGGA	1 cut(s)	409
KpnI	GGTACC	1 cut(s)	185
KspAI	GTTAAC	1 cut(s)	814
Kzo9I	GATC	2 cut(s)	714, 742
LmnI	GCTCC	1 cut(s)	523
Lsp1109I	GCAGC	3 cut(s)	433, 511, 778
LweI	GCATC	4 cut(s)	154, 535, 622, 743
MaeI	CTAG	1 cut(s)	503
MaeII	ACGT	2 cut(s)	653, 881
MaeIII	GTNAC	2 cut(s)	20, 877
MalI	GATC	2 cut(s)	716, 744
MboI	GATC	2 cut(s)	714, 742
MboII	GAAGA	6 cut(s)	203, 708, 713, 716, 752, 788
MhlI	GDGCHC	1 cut(s)	826
MluCI	AATT	5 cut(s)	55, 328, 431, 688, 957
MlyI	GAGTC	2 cut(s)	151, 364
MmeI	TCCRAC	1 cut(s)	606
MnlI	CCTC	2 cut(s)	514, 536
Mph1103I	ATGCAT	2 cut(s)	247, 673
MroI	TCCGGA	1 cut(s)	409
MroXI	GAANNNNTTC	1 cut(s)	195
MseI	TTAA	4 cut(s)	449, 605, 813, 921
MslI	CAYNNNNRTG	3 cut(s)	690, 771, 998
MspA1I	CMGCKG	1 cut(s)	791
MspCI	CTTAAG	1 cut(s)	448
MspI	CCGG	1 cut(s)	410
MspR9I	CCNGG	4 cut(s)	125, 404, 732, 896
Mva1269I	GAATGC	1 cut(s)	555
MvaI	CCWGG	4 cut(s)	125, 404, 732, 896
MvnI	CGCG	1 cut(s)	133
MwoI	GCNNNNNNNGC	1 cut(s)	251
NdeII	GATC	2 cut(s)	714, 742
NlaIII	CATG	7 cut(s)	245, 496, 542, 752, 873, 909, 997
NlaIV	GGNNCC	2 cut(s)	183, 408
NmuCI	GTSAC	1 cut(s)	20
NsbI	TGCGCA	1 cut(s)	290
NsiI	ATGCAT	2 cut(s)	247, 673
NspI	RCATGY	4 cut(s)	245, 496, 873, 997
PaeI	GCATGC	3 cut(s)	245, 496, 873
PaeR7I	CTCGAG	1 cut(s)	98
PctI	GAATGC	1 cut(s)	555
PdmI	GAANNNNTTC	1 cut(s)	195
PfeI	GAWTC	2 cut(s)	781, 973
PflMI	CCANNNNNTGG	1 cut(s)	539
PkrI	GCNGC	5 cut(s)	10, 423, 498, 501, 793
PleI	GAGTC	2 cut(s)	150, 364
PpsI	GAGTC	2 cut(s)	150, 364
Psp1406I	AACGTT	1 cut(s)	881
Psp6I	CCWGG	4 cut(s)	123, 402, 730, 894
PspFI	CCCAGC	1 cut(s)	914
PspGI	CCWGG	4 cut(s)	123, 402, 730, 894
PspN4I	GGNNCC	2 cut(s)	183, 408
PspPI	GGNCC	1 cut(s)	407
PvuII	CAGCTG	1 cut(s)	791
RsaI	GTAC	1 cut(s)	183
RsaNI	GTAC	1 cut(s)	182
RseI	CAYNNNNRTG	3 cut(s)	690, 771, 998
SaqAI	TTAA	4 cut(s)	449, 605, 813, 921
SatI	GCNGC	5 cut(s)	9, 422, 497, 500, 792
Sau3AI	GATC	2 cut(s)	714, 742
Sau96I	GGNCC	1 cut(s)	407
SchI	GAGTC	2 cut(s)	151, 364
ScrFI	CCNGG	4 cut(s)	125, 404, 732, 896
SduI	GDGCHC	1 cut(s)	826
SfaNI	GCATC	4 cut(s)	154, 535, 622, 743
SfcI	CTRYAG	3 cut(s)	342, 375, 981
Sfr274I	CTCGAG	1 cut(s)	98
SinI	GGWCC	1 cut(s)	407
SlaI	CTCGAG	1 cut(s)	98
SmiMI	CAYNNNNRTG	3 cut(s)	690, 771, 998
SmlI	CTYRAG	2 cut(s)	98, 448
SmoI	CTYRAG	2 cut(s)	98, 448
SphI	GCATGC	3 cut(s)	245, 496, 873
Sse9I	AATT	5 cut(s)	55, 328, 431, 688, 957
SsiI	CCGC	1 cut(s)	496
SspMI	CTAG	1 cut(s)	503
StyD4I	CCNGG	4 cut(s)	123, 402, 730, 894
TaaI	ACNGT	3 cut(s)	26, 818, 877
TaiI	ACGT	2 cut(s)	656, 884
TaqI	TCGA	1 cut(s)	99
TasI	AATT	5 cut(s)	55, 328, 431, 688, 957
TauI	GCSGC	1 cut(s)	499
TfiI	GAWTC	2 cut(s)	781, 973
Tru1I	TTAA	4 cut(s)	449, 605, 813, 921
Tru9I	TTAA	4 cut(s)	449, 605, 813, 921
TscAI	CASTG	3 cut(s)	163, 315, 778
TseFI	GTSAC	1 cut(s)	20
TseI	GCWGC	4 cut(s)	8, 421, 499, 791
Tsp45I	GTSAC	1 cut(s)	20
TspDTI	ATGAA	5 cut(s)	51, 217, 854, 977, 986
TspRI	CASTG	3 cut(s)	163, 315, 778
Van91I	CCANNNNNTGG	1 cut(s)	539
Vha464I	CTTAAG	1 cut(s)	448
VpaK11BI	GGWCC	1 cut(s)	407
XapI	RAATTY	2 cut(s)	55, 431
XceI	RCATGY	4 cut(s)	245, 496, 873, 997
XcmI	CCANNNNNNNNNTGG	1 cut(s)	400
XhoI	CTCGAG	1 cut(s)	98
XmnI	GAANNNNTTC	1 cut(s)	195
XspI	CTAG	1 cut(s)	503
Zsp2I	ATGCAT	2 cut(s)	247, 673

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