Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6B

Orthogroup ID

OG0017377

Physical Location & Seq

Genomic Coordinates Forward (+)

3897216 .. 3899233

Gene Structure 2018 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6BG026300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 417 bp

ATGTTTATGCAAGGACTGCGTAGATGTGTGGAGGAGATTGTGTTCTCTTATACCTACCCTAGACTTGACATGGAGGTTTCAAAACATATGAACCATTTATTAAAGGCACCATTCTGTGTACATCCAAAGACAGGTCGTGTTTGTGTTCCGATTGATCCCAACCGTTGTGAGGAGTTTGATCCTACTGCAGTTCCAACCCTTTCCACTCTTATTGAAGAACTTAATAATGAGGGTTTGAGAGCAGAGGCTGATAACGAACGGGATAGAACGTCACTTGGAAAATCAATAAGATTCTTCCAATCATCATTTTTGGAGCCTTTGGTAAAATCTTGCAAGGAGGAGATGATAAGTTCCTACAATGCGAAACTGCAGCAGTCGAAGTTGCAGCAGTCAAAGAACGTGCTTGCTGCAATCTAG

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

138

Amino Acids

15.81

Weight (kDa)

6.82

Isoelectric Point (pI)

53.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_S	PF01896	10 - 52	6.4e-13	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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Orthologous Genes (Group: OG0017377)

Species	Orthologous Gene IDs
malus_domestica	MD06G1072700.v1.1 MD14G1127600.v1.1
pyrus_communis	pycom16g19580
rosa_chinensis	RchiOBHm_Chr6g0245391
rosa_laevigata	RLG00000008502 RLG00000036015
rosa_multiflora	Rmu_sc0009380.1_g000010 Rmu_sc0030772.1_g000001
rosa_rugosa	Rorug05G0394000
rosa_samantha	Rh6BG026300 Rh6CG025000 Rh7DG148900
rosa_wichuraiana	Rw2G021700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	106
AclWI	GGATC	2 cut(s)	149, 173
AfaI	GTAC	1 cut(s)	120
AfiI	CCNNNNNNNGG	2 cut(s)	131, 169
AgsI	TTSAA	2 cut(s)	81, 215
AloI	GAACNNNNNNTCC	2 cut(s)	26, 58
AlwI	GGATC	2 cut(s)	149, 173
AlwNI	CAGNNNCTG	1 cut(s)	248
ApeKI	GCWGC	3 cut(s)	370, 385, 407
BanI	GGYRCC	1 cut(s)	106
BbvI	GCAGC	3 cut(s)	382, 394, 397
BfaI	CTAG	2 cut(s)	60, 415
BfmI	CTRYAG	2 cut(s)	186, 368
BisI	GCNGC	3 cut(s)	371, 386, 408
BlsI	GCNGC	3 cut(s)	372, 387, 409
BmiI	GGNNCC	2 cut(s)	108, 315
BsaXI	ACNNNNNCTCC	2 cut(s)	26, 56
Bsc4I	CCNNNNNNNGG	2 cut(s)	131, 169
BseGI	GGATG	1 cut(s)	121
BseLI	CCNNNNNNNGG	2 cut(s)	131, 169
BseRI	GAGGAG	3 cut(s)	47, 185, 353
BseXI	GCAGC	3 cut(s)	382, 394, 397
BshNI	GGYRCC	1 cut(s)	106
BslI	CCNNNNNNNGG	2 cut(s)	131, 169
Bsp1407I	TGTACA	1 cut(s)	118
Bsp143I	GATC	2 cut(s)	154, 178
BspLI	GGNNCC	2 cut(s)	108, 315
BspMAI	CTGCAG	2 cut(s)	190, 372
BspPI	GGATC	2 cut(s)	149, 173
BspT107I	GGYRCC	1 cut(s)	106
BsrGI	TGTACA	1 cut(s)	118
BssMI	GATC	2 cut(s)	154, 178
Bst4CI	ACNGT	1 cut(s)	164
BstAPI	GCANNNNNTGC	1 cut(s)	16
BstAUI	TGTACA	1 cut(s)	118
BstC8I	GCNNGC	1 cut(s)	405
BstF5I	GGATG	1 cut(s)	121
BstKTI	GATC	2 cut(s)	157, 181
BstMBI	GATC	2 cut(s)	154, 178
BstMWI	GCNNNNNNNGC	1 cut(s)	16
BstSFI	CTRYAG	2 cut(s)	186, 368
BstV1I	GCAGC	3 cut(s)	382, 394, 397
BtsCI	GGATG	1 cut(s)	121
Cac8I	GCNNGC	1 cut(s)	405
CaiI	CAGNNNCTG	1 cut(s)	248
Csp6I	GTAC	1 cut(s)	119
CspCI	CAANNNNNGTGG	2 cut(s)	193, 228
CviAII	CATG	1 cut(s)	70
CviJI	RGCY	2 cut(s)	248, 316
CviKI_1	RGCY	2 cut(s)	248, 316
CviQI	GTAC	1 cut(s)	119
DpnI	GATC	2 cut(s)	156, 180
DpnII	GATC	2 cut(s)	154, 178
FaeI	CATG	1 cut(s)	73
FaiI	YATR	5 cut(s)	8, 51, 71, 87, 89
FatI	CATG	1 cut(s)	69
FauNDI	CATATG	1 cut(s)	87
Fnu4HI	GCNGC	3 cut(s)	371, 386, 408
FokI	GGATG	1 cut(s)	108
Fsp4HI	GCNGC	3 cut(s)	371, 386, 408
FspBI	CTAG	2 cut(s)	60, 415
GluI	GCNGC	3 cut(s)	371, 386, 408
Hin1II	CATG	1 cut(s)	73
HinfI	GANTC	1 cut(s)	291
Hpy166II	GTNNAC	1 cut(s)	119
Hpy188I	TCNGA	1 cut(s)	150
Hpy8I	GTNNAC	1 cut(s)	119
HpyCH4III	ACNGT	1 cut(s)	164
HpyCH4IV	ACGT	2 cut(s)	269, 399
HpyCH4V	TGCA	6 cut(s)	10, 188, 333, 370, 385, 410
HpyF10VI	GCNNNNNNNGC	1 cut(s)	16
HpySE526I	ACGT	2 cut(s)	269, 399
Hsp92II	CATG	1 cut(s)	73
Kzo9I	GATC	2 cut(s)	154, 178
LmnI	GCTCC	1 cut(s)	313
LpnPI	CCDG	1 cut(s)	117
Lsp1109I	GCAGC	3 cut(s)	382, 394, 397
MaeI	CTAG	2 cut(s)	60, 415
MaeII	ACGT	2 cut(s)	269, 399
MaeIII	GTNAC	1 cut(s)	270
MalI	GATC	2 cut(s)	156, 180
MboI	GATC	2 cut(s)	154, 178
MboII	GAAGA	2 cut(s)	227, 286
MmeI	TCCRAC	1 cut(s)	218
MnlI	CCTC	6 cut(s)	25, 67, 163, 223, 238, 331
MseI	TTAA	2 cut(s)	101, 222
MwoI	GCNNNNNNNGC	1 cut(s)	16
NdeI	CATATG	1 cut(s)	87
NdeII	GATC	2 cut(s)	154, 178
NlaIII	CATG	1 cut(s)	73
NlaIV	GGNNCC	2 cut(s)	108, 315
NmuCI	GTSAC	1 cut(s)	270
PfeI	GAWTC	1 cut(s)	291
PkrI	GCNGC	3 cut(s)	372, 387, 409
PspN4I	GGNNCC	2 cut(s)	108, 315
PstI	CTGCAG	2 cut(s)	190, 372
PstNI	CAGNNNCTG	1 cut(s)	248
RsaI	GTAC	1 cut(s)	120
RsaNI	GTAC	1 cut(s)	119
SaqAI	TTAA	2 cut(s)	101, 222
SatI	GCNGC	3 cut(s)	371, 386, 408
Sau3AI	GATC	2 cut(s)	154, 178
SetI	ASST	5 cut(s)	56, 78, 136, 272, 402
SfcI	CTRYAG	2 cut(s)	186, 368
SspMI	CTAG	2 cut(s)	60, 415
TaaI	ACNGT	1 cut(s)	164
TaiI	ACGT	2 cut(s)	272, 402
TaqI	TCGA	1 cut(s)	377
TatI	WGTACW	1 cut(s)	118
TfiI	GAWTC	1 cut(s)	291
Tru1I	TTAA	2 cut(s)	101, 222
Tru9I	TTAA	2 cut(s)	101, 222
TseFI	GTSAC	1 cut(s)	270
TseI	GCWGC	3 cut(s)	370, 385, 407
Tsp45I	GTSAC	1 cut(s)	270
TspDTI	ATGAA	1 cut(s)	104
XspI	CTAG	2 cut(s)	60, 415

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