Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr2

Orthogroup ID

OG0001324

Physical Location & Seq

Genomic Coordinates Reverse (-)

55125755 .. 55127173

Gene Structure 1419 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000009597

Sequence Viewer

CDS Protein Promoter (2k)

Length: 390 bp

ATGGATGACATATTGTTGATTGAGCCTGAAATTTATTTGTATTTGTTTGGTAGAGAGCTCATACTGTTTCTTTGTTTCAGTTTATTTCCAGATAGCTCTCAGCAAAACACTGGTTCTGGGACCTTCAAGCTTGACGAGGATCCTGCACCACCACCGCCTAAGGAGAAAAATGGTCGTTCCACGCCACCTTTATGGTTTATAAGTGCTGAAGAGCTGGATTCCTTGTCATCATACATGAGAGGAAGGCTTACACTAGAGAAGGTCAATGCAGCTATTAGTGACATGGCAACATATGTTGAAGCAAATTATCAGCTCATCGCTGCTCCAAAGAAGAATATTTGTGTTCTGCCTCTCTGGTTTTTGGTTTGTACATCTTTGGCACAGGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SKA1

Protein Analysis

130

Amino Acids

14.49

Weight (kDa)

4.52

Isoelectric Point (pI)

56.78

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SKA1	PF07160	39 - 113	1.4e-23	Spindle and kinetochore-associated protein 1

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: OG0001324)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G60660
fragaria_vesca	FvH4_7g11150 FvH4_7g11150 FvH4_7g11150 FvH4_7g11150
malus_domestica	MD02G1209900.v1.1
prunus_persica	Prupe.2G138600_v2.0.a1
pyrus_communis	pycom02g17150
rosa_chinensis	RchiOBHm_Chr1g0349231 RchiOBHm_Chr1g0349241 RchiOBHm_Chr5g0028911
rosa_laevigata	RLG00000009597 RLG00000028567 RLG00000028571 RLG00000028575 RLG00000028581 RLG00000028583 RLG00000028586 RLG00000028589 RLG00000028593 RLG00000028595 RLG00000028597 RLG00000030621
rosa_multiflora	Rmu_sc0000827.1_g000037 Rmu_sc0002914.1_g000030 Rmu_sc0003385.1_g000016 Rmu_sc0003385.1_g000026 Rmu_sc0006415.1_g000020 Rmu_sc0016526.1_g000001 Rmu_ssc0000150.1_g000012
rosa_roxburghii	Rroxscaffold_4G00305770 Rroxscaffold_4G00305780 Rroxscaffold_4G00305890 Rroxscaffold_4G00305910 Rroxscaffold_4G00305970 Rroxscaffold_4G00306010 Rroxscaffold_4G00306040
rosa_rugosa	Rorug01G0201500 Rorug01G0201900 Rorug05G0111400 Rorug05G0239700
rosa_samantha	Rh1AG218700 Rh1AG219100 Rh1AG219600 Rh1CG203200 Rh1CG204600 Rh1CG204800 Rh3AG070800 Rh5AG203700 Rh5BG202000
rosa_wichuraiana	Rw0G019560 Rw1G018600 Rw1G018630 Rw5G018440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	200
AciI	CCGC	1 cut(s)	155
AclWI	GGATC	2 cut(s)	134, 147
AcsI	RAATTY	1 cut(s)	30
AcuI	CTGAAG	1 cut(s)	228
AfaI	GTAC	1 cut(s)	370
AgsI	TTSAA	2 cut(s)	127, 299
AluBI	AGCT	6 cut(s)	58, 96, 130, 214, 272, 313
AluI	AGCT	6 cut(s)	58, 96, 130, 214, 272, 313
Alw21I	GWGCWC	1 cut(s)	60
AlwI	GGATC	2 cut(s)	134, 147
ApeKI	GCWGC	2 cut(s)	269, 320
ApoI	RAATTY	1 cut(s)	30
AspS9I	GGNCC	1 cut(s)	120
AvaII	GGWCC	1 cut(s)	120
AxyI	CCTNAGG	1 cut(s)	159
BamHI	GGATCC	1 cut(s)	139
BanII	GRGCYC	1 cut(s)	60
Bbv12I	GWGCWC	1 cut(s)	60
BbvI	GCAGC	2 cut(s)	281, 307
BcgI	CGANNNNNNTGC	2 cut(s)	125, 159
BfaI	CTAG	1 cut(s)	254
BisI	GCNGC	2 cut(s)	270, 321
BlsI	GCNGC	2 cut(s)	271, 322
Bme18I	GGWCC	1 cut(s)	120
BmgT120I	GGNCC	1 cut(s)	120
BmiI	GGNNCC	2 cut(s)	121, 141
Bse1I	ACTGG	1 cut(s)	115
Bse21I	CCTNAGG	1 cut(s)	159
BseGI	GGATG	1 cut(s)	10
BseMII	CTCAG	1 cut(s)	113
BseNI	ACTGG	1 cut(s)	115
BseXI	GCAGC	2 cut(s)	281, 307
BsgI	GTGCAG	1 cut(s)	129
BsiHKAI	GWGCWC	1 cut(s)	60
BslFI	GGGAC	1 cut(s)	133
BsmFI	GGGAC	1 cut(s)	133
Bsp1286I	GDGCHC	1 cut(s)	60
Bsp1407I	TGTACA	1 cut(s)	368
Bsp143I	GATC	1 cut(s)	139
BspACI	CCGC	1 cut(s)	155
BspCNI	CTCAG	1 cut(s)	112
BspLI	GGNNCC	2 cut(s)	121, 141
BspPI	GGATC	2 cut(s)	134, 147
BspQI	GCTCTTC	1 cut(s)	204
BsrGI	TGTACA	1 cut(s)	368
BsrI	ACTGG	1 cut(s)	115
BssMI	GATC	1 cut(s)	139
Bst4CI	ACNGT	1 cut(s)	66
Bst6I	CTCTTC	1 cut(s)	204
BstAUI	TGTACA	1 cut(s)	368
BstDEI	CTNAG	2 cut(s)	99, 159
BstF5I	GGATG	1 cut(s)	10
BstKTI	GATC	1 cut(s)	142
BstMBI	GATC	1 cut(s)	139
BstV1I	GCAGC	2 cut(s)	281, 307
BstX2I	RGATCY	1 cut(s)	139
BstXI	CCANNNNNNTGG	1 cut(s)	192
BstYI	RGATCY	1 cut(s)	139
Bsu36I	CCTNAGG	1 cut(s)	159
BtgZI	GCGATG	1 cut(s)	301
BtsCI	GGATG	1 cut(s)	10
BtsIMutI	CAGTG	1 cut(s)	108
Cfr13I	GGNCC	1 cut(s)	120
Csp6I	GTAC	1 cut(s)	369
CviAII	CATG	2 cut(s)	235, 283
CviJI	RGCY	8 cut(s)	25, 58, 96, 130, 214, 247, 272, 313
CviKI_1	RGCY	8 cut(s)	25, 58, 96, 130, 214, 247, 272, 313
CviQI	GTAC	1 cut(s)	369
DdeI	CTNAG	2 cut(s)	99, 159
DpnI	GATC	1 cut(s)	141
DpnII	GATC	1 cut(s)	139
Eam1104I	CTCTTC	1 cut(s)	204
EarI	CTCTTC	1 cut(s)	204
Ecl136II	GAGCTC	1 cut(s)	58
Eco24I	GRGCYC	1 cut(s)	60
Eco47I	GGWCC	1 cut(s)	120
Eco53kI	GAGCTC	1 cut(s)	58
Eco57I	CTGAAG	1 cut(s)	228
Eco81I	CCTNAGG	1 cut(s)	159
EcoICRI	GAGCTC	1 cut(s)	58
EcoO109I	RGGNCCY	1 cut(s)	120
EcoT38I	GRGCYC	1 cut(s)	60
FaeI	CATG	2 cut(s)	238, 286
FaiI	YATR	9 cut(s)	11, 62, 193, 200, 232, 236, 284, 292, 294
FaqI	GGGAC	1 cut(s)	133
FatI	CATG	2 cut(s)	234, 282
FauNDI	CATATG	1 cut(s)	292
Fnu4HI	GCNGC	2 cut(s)	270, 321
FokI	GGATG	1 cut(s)	17
FriOI	GRGCYC	1 cut(s)	60
Fsp4HI	GCNGC	2 cut(s)	270, 321
FspBI	CTAG	1 cut(s)	254
GluI	GCNGC	2 cut(s)	270, 321
Hin1II	CATG	2 cut(s)	238, 286
HindIII	AAGCTT	1 cut(s)	128
HinfI	GANTC	1 cut(s)	218
Hpy188I	TCNGA	1 cut(s)	389
Hpy188III	TCNNGA	1 cut(s)	89
HpyAV	CCTTC	3 cut(s)	133, 237, 253
HpyCH4III	ACNGT	1 cut(s)	66
HpyCH4V	TGCA	2 cut(s)	146, 269
HpyF3I	CTNAG	2 cut(s)	99, 159
Hsp92II	CATG	2 cut(s)	238, 286
Kzo9I	GATC	1 cut(s)	139
LguI	GCTCTTC	1 cut(s)	204
LmnI	GCTCC	1 cut(s)	328
LpnPI	CCDG	8 cut(s)	39, 96, 102, 102, 156, 200, 340, 368
Lsp1109I	GCAGC	2 cut(s)	281, 307
MaeI	CTAG	1 cut(s)	254
MaeIII	GTNAC	1 cut(s)	278
MalI	GATC	1 cut(s)	141
MboI	GATC	1 cut(s)	139
MboII	GAAGA	2 cut(s)	221, 343
MflI	RGATCY	1 cut(s)	139
MhlI	GDGCHC	1 cut(s)	60
MluCI	AATT	2 cut(s)	30, 304
MnlI	CCTC	3 cut(s)	130, 233, 360
MslI	CAYNNNNRTG	1 cut(s)	190
NdeI	CATATG	1 cut(s)	292
NdeII	GATC	1 cut(s)	139
NlaIII	CATG	2 cut(s)	238, 286
NlaIV	GGNNCC	2 cut(s)	121, 141
NmuCI	GTSAC	1 cut(s)	278
PciSI	GCTCTTC	1 cut(s)	204
PfeI	GAWTC	1 cut(s)	218
PkrI	GCNGC	2 cut(s)	271, 322
PpuMI	RGGWCCY	1 cut(s)	120
PsiI	TTATAA	1 cut(s)	200
Psp124BI	GAGCTC	1 cut(s)	60
Psp5II	RGGWCCY	1 cut(s)	120
PspN4I	GGNNCC	2 cut(s)	121, 141
PspPI	GGNCC	1 cut(s)	120
PspPPI	RGGWCCY	1 cut(s)	120
PsuI	RGATCY	1 cut(s)	139
RsaI	GTAC	1 cut(s)	370
RsaNI	GTAC	1 cut(s)	369
RseI	CAYNNNNRTG	1 cut(s)	190
SacI	GAGCTC	1 cut(s)	60
SapI	GCTCTTC	1 cut(s)	204
SatI	GCNGC	2 cut(s)	270, 321
Sau3AI	GATC	1 cut(s)	139
Sau96I	GGNCC	1 cut(s)	120
SduI	GDGCHC	1 cut(s)	60
SinI	GGWCC	1 cut(s)	120
SmiMI	CAYNNNNRTG	1 cut(s)	190
Sse9I	AATT	2 cut(s)	30, 304
SsiI	CCGC	1 cut(s)	155
SspI	AATATT	1 cut(s)	337
SspMI	CTAG	1 cut(s)	254
SstI	GAGCTC	1 cut(s)	60
TaaI	ACNGT	1 cut(s)	66
TasI	AATT	2 cut(s)	30, 304
TatI	WGTACW	1 cut(s)	368
TfiI	GAWTC	1 cut(s)	218
TscAI	CASTG	1 cut(s)	115
TseFI	GTSAC	1 cut(s)	278
TseI	GCWGC	2 cut(s)	269, 320
Tsp45I	GTSAC	1 cut(s)	278
TspRI	CASTG	1 cut(s)	115
VpaK11BI	GGWCC	1 cut(s)	120
XapI	RAATTY	1 cut(s)	30
XspI	CTAG	1 cut(s)	254

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