Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0015707

Physical Location & Seq

Genomic Coordinates Forward (+)

40174006 .. 40175384

Gene Structure 1379 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG207700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 387 bp

ATGGAAAAGAAGAAGAAAGAATGGATTATTTGCCTTATTCCTGTTAAAAGATCATCTCATCTACTCCTGGTGTTGAATATCATCATGGATGCCCATATCAACATTTCAGTGTCAGATTGCTGCAAAGACCATCTAACATCTCAGTTCTGTGAAGAGAATCTGACAGCTGCTCTCAGTAGAATGGGAGTTAACGGTTGTGCTCTTGGCGATGTAATGAAAGTTTGGAATAAGCATTATCAGTTGGCATGCACCGTAACGTTTGAAGCTGTCCAGGGGACATCATGTGAAGCTGGGATTAACCATCCAAATCAATACTTCTATGACAGCCAAATAATTATGAAGTCAATGAATCAATCTACAGCGAAGGACATGCAAATGCAAATATAA

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

128

Amino Acids

14.47

Weight (kDa)

6.93

Isoelectric Point (pI)

52.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_lrg	PF04104	49 - 106	1.9e-10	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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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)
AclI	AACGTT	1 cut(s)	257
AgsI	TTSAA	2 cut(s)	76, 263
AjnI	CCWGG	2 cut(s)	66, 270
AluBI	AGCT	3 cut(s)	167, 266, 290
AluI	AGCT	3 cut(s)	167, 266, 290
Alw21I	GWGCWC	1 cut(s)	202
ApeKI	GCWGC	2 cut(s)	120, 167
Bbv12I	GWGCWC	1 cut(s)	202
BbvI	GCAGC	2 cut(s)	107, 154
BccI	CCATC	2 cut(s)	138, 309
BcgI	CGANNNNNNTGC	2 cut(s)	352, 386
BciT130I	CCWGG	2 cut(s)	68, 272
BfmI	CTRYAG	1 cut(s)	357
BisI	GCNGC	2 cut(s)	121, 168
BlsI	GCNGC	2 cut(s)	122, 169
Bme1390I	CCNGG	2 cut(s)	68, 272
BmrFI	CCNGG	2 cut(s)	68, 272
BmsI	GCATC	1 cut(s)	79
BsaJI	CCNNGG	1 cut(s)	271
BseBI	CCWGG	2 cut(s)	68, 272
BseDI	CCNNGG	1 cut(s)	271
BseGI	GGATG	2 cut(s)	94, 301
BseMII	CTCAG	2 cut(s)	155, 187
BseXI	GCAGC	2 cut(s)	107, 154
BseYI	CCCAGC	1 cut(s)	290
BsiHKAI	GWGCWC	1 cut(s)	202
BslFI	GGGAC	1 cut(s)	289
BsmFI	GGGAC	1 cut(s)	289
Bsp1286I	GDGCHC	1 cut(s)	202
Bsp143I	GATC	1 cut(s)	50
BspCNI	CTCAG	2 cut(s)	154, 186
BssECI	CCNNGG	1 cut(s)	271
BssMI	GATC	1 cut(s)	50
Bst2UI	CCWGG	2 cut(s)	68, 272
Bst4CI	ACNGT	2 cut(s)	194, 253
Bst6I	CTCTTC	1 cut(s)	147
BstC8I	GCNNGC	1 cut(s)	247
BstDEI	CTNAG	2 cut(s)	141, 173
BstF5I	GGATG	2 cut(s)	94, 301
BstKTI	GATC	1 cut(s)	53
BstMBI	GATC	1 cut(s)	50
BstNI	CCWGG	2 cut(s)	68, 272
BstNSI	RCATGY	2 cut(s)	249, 373
BstSCI	CCNGG	2 cut(s)	66, 270
BstSFI	CTRYAG	1 cut(s)	357
BstV1I	GCAGC	2 cut(s)	107, 154
BtgZI	GCGATG	1 cut(s)	222
BtsCI	GGATG	2 cut(s)	94, 301
BtsIMutI	CAGTG	1 cut(s)	114
Cac8I	GCNNGC	1 cut(s)	247
CviAII	CATG	4 cut(s)	85, 246, 282, 370
CviJI	RGCY	4 cut(s)	167, 266, 290, 327
CviKI_1	RGCY	4 cut(s)	167, 266, 290, 327
DdeI	CTNAG	2 cut(s)	141, 173
DpnI	GATC	1 cut(s)	52
DpnII	GATC	1 cut(s)	50
Eam1104I	CTCTTC	1 cut(s)	147
EarI	CTCTTC	1 cut(s)	147
EcoRII	CCWGG	2 cut(s)	66, 270
FaeI	CATG	4 cut(s)	88, 249, 285, 373
FaiI	YATR	8 cut(s)	86, 96, 247, 283, 321, 338, 371, 385
FaqI	GGGAC	1 cut(s)	289
FatI	CATG	4 cut(s)	84, 245, 281, 369
Fnu4HI	GCNGC	2 cut(s)	121, 168
FokI	GGATG	2 cut(s)	101, 288
Fsp4HI	GCNGC	2 cut(s)	121, 168
GluI	GCNGC	2 cut(s)	121, 168
GsaI	CCCAGC	1 cut(s)	294
Hin1II	CATG	4 cut(s)	88, 249, 285, 373
HincII	GTYRAC	1 cut(s)	190
HindII	GTYRAC	1 cut(s)	190
HinfI	GANTC	2 cut(s)	157, 349
HpaI	GTTAAC	1 cut(s)	190
Hpy166II	GTNNAC	1 cut(s)	190
Hpy188I	TCNGA	2 cut(s)	115, 162
Hpy8I	GTNNAC	1 cut(s)	190
HpyAV	CCTTC	1 cut(s)	358
HpyCH4III	ACNGT	2 cut(s)	194, 253
HpyCH4IV	ACGT	1 cut(s)	257
HpyCH4V	TGCA	4 cut(s)	123, 249, 373, 379
HpyF3I	CTNAG	2 cut(s)	141, 173
HpySE526I	ACGT	1 cut(s)	257
Hsp92II	CATG	4 cut(s)	88, 249, 285, 373
KspAI	GTTAAC	1 cut(s)	190
Kzo9I	GATC	1 cut(s)	50
LpnPI	CCDG	6 cut(s)	53, 54, 80, 257, 276, 284
Lsp1109I	GCAGC	2 cut(s)	107, 154
LweI	GCATC	1 cut(s)	79
MaeII	ACGT	1 cut(s)	257
MaeIII	GTNAC	1 cut(s)	253
MalI	GATC	1 cut(s)	52
MboI	GATC	1 cut(s)	50
MboII	GAAGA	3 cut(s)	22, 25, 164
MhlI	GDGCHC	1 cut(s)	202
MluCI	AATT	1 cut(s)	333
MseI	TTAA	3 cut(s)	45, 189, 297
MslI	CAYNNNNRTG	2 cut(s)	107, 374
MspA1I	CMGCKG	1 cut(s)	167
MspR9I	CCNGG	2 cut(s)	68, 272
MvaI	CCWGG	2 cut(s)	68, 272
NdeII	GATC	1 cut(s)	50
NlaIII	CATG	4 cut(s)	88, 249, 285, 373
NspI	RCATGY	2 cut(s)	249, 373
PaeI	GCATGC	1 cut(s)	249
PfeI	GAWTC	2 cut(s)	157, 349
PkrI	GCNGC	2 cut(s)	122, 169
Psp1406I	AACGTT	1 cut(s)	257
Psp6I	CCWGG	2 cut(s)	66, 270
PspFI	CCCAGC	1 cut(s)	290
PspGI	CCWGG	2 cut(s)	66, 270
PvuII	CAGCTG	1 cut(s)	167
RseI	CAYNNNNRTG	2 cut(s)	107, 374
SaqAI	TTAA	3 cut(s)	45, 189, 297
SatI	GCNGC	2 cut(s)	121, 168
Sau3AI	GATC	1 cut(s)	50
ScrFI	CCNGG	2 cut(s)	68, 272
SduI	GDGCHC	1 cut(s)	202
SetI	ASST	4 cut(s)	169, 260, 268, 292
SfaNI	GCATC	1 cut(s)	79
SfcI	CTRYAG	1 cut(s)	357
SmiMI	CAYNNNNRTG	2 cut(s)	107, 374
SphI	GCATGC	1 cut(s)	249
Sse9I	AATT	1 cut(s)	333
StyD4I	CCNGG	2 cut(s)	66, 270
TaaI	ACNGT	2 cut(s)	194, 253
TaiI	ACGT	1 cut(s)	260
TasI	AATT	1 cut(s)	333
TfiI	GAWTC	2 cut(s)	157, 349
Tru1I	TTAA	3 cut(s)	45, 189, 297
Tru9I	TTAA	3 cut(s)	45, 189, 297
TscAI	CASTG	1 cut(s)	114
TseI	GCWGC	2 cut(s)	120, 167
TspDTI	ATGAA	3 cut(s)	230, 353, 362
TspRI	CASTG	1 cut(s)	114
XceI	RCATGY	2 cut(s)	249, 373

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