Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr6

Orthogroup ID

OG0001324

Physical Location & Seq

Genomic Coordinates Reverse (-)

24455555 .. 24457706

Gene Structure 2152 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000028567

Sequence Viewer

CDS Protein Promoter (2k)

Length: 615 bp

ATGGAGGTTGACAAAGTAGGGGCGTCGTTGGACTCGCTGATCGCCGTGTTCAACAGTCGGATCTCAGAGCTCCAAGAGCTCGTTATTGCGCGAAACATGTACCCGGACAGCAGCGTCACCGATTTGACGGCCGTCGACGCCGCCGTGAAGGCCATGGAGCTTCAGGTTCAGGCTATCAAGGACCGAGTTCGCGACGAAACCCTAGCCATCCCCAAAGCAAAAAAACTGATCGATGCATCGCTGAAGCAGCAAAGGAAATTGAAGGATATGTCAATTTATGCCCCCACTTATGTTCCTGAAAGAATGTCGATGTTGAATTTGGACACAAATAGATGTTTATTTCCAGAAAGCTCTCAGCAAAACACTGGTTGTGGGACCTTCAAGCTTGAGGAGGATCCTGCACCACCTCCACCACCCAAGGAGAAAAAGGGTCGTTCCACCCCACCATTGTGGTTTATAAGAGCTGAAGAGCTGGATTCCTTGTCATCATACATGAGAGGAAGGCTTACACTAGAGAAGGTCACTGCAGCTATTAATGACATGGCAACATATGCTGAAGCAAATTATCAGCTCATATCTGCTCCAAAGAAGAATGTTTGTGTTCTGCCTCTCTGA

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

205

Amino Acids

22.72

Weight (kDa)

6.4

Isoelectric Point (pI)

47.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SKA1	PF07160	9 - 198	2e-51	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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Align Labels (Cladogram)

Image

Tree File

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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)	458
AasI	GACNNNNNNGTC	1 cut(s)	113
AccI	GTMKAC	1 cut(s)	135
AccII	CGCG	2 cut(s)	91, 192
AciI	CCGC	1 cut(s)	141
AclWI	GGATC	3 cut(s)	68, 389, 402
AcoI	YGGCCR	1 cut(s)	129
AcsI	RAATTY	1 cut(s)	316
AcuI	CTGAAG	4 cut(s)	146, 263, 486, 576
AcyI	GRCGYC	2 cut(s)	23, 138
AfaI	GTAC	1 cut(s)	101
AflIII	ACRYGT	1 cut(s)	96
AgsI	TTSAA	4 cut(s)	52, 262, 316, 382
AleI	CACNNNNGTG	1 cut(s)	448
AluBI	AGCT	9 cut(s)	70, 79, 160, 351, 385, 464, 472, 530, 571
AluI	AGCT	9 cut(s)	70, 79, 160, 351, 385, 464, 472, 530, 571
Alw21I	GWGCWC	2 cut(s)	72, 81
AlwI	GGATC	3 cut(s)	68, 389, 402
AoxI	GGCC	2 cut(s)	129, 150
ApeKI	GCWGC	3 cut(s)	111, 247, 527
ApoI	RAATTY	1 cut(s)	316
AseI	ATTAAT	1 cut(s)	534
AspLEI	GCGC	1 cut(s)	91
AspS9I	GGNCC	2 cut(s)	181, 375
AsuC2I	CCSGG	1 cut(s)	104
AsuHPI	GGTGA	1 cut(s)	109
AvaII	GGWCC	2 cut(s)	181, 375
BamHI	GGATCC	1 cut(s)	394
BanII	GRGCYC	2 cut(s)	72, 81
Bbv12I	GWGCWC	2 cut(s)	72, 81
BbvI	GCAGC	3 cut(s)	123, 259, 539
BccI	CCATC	1 cut(s)	215
BceAI	ACGGC	4 cut(s)	29, 116, 128, 144
BcnI	CCSGG	1 cut(s)	104
BfaI	CTAG	2 cut(s)	203, 512
BfmI	CTRYAG	1 cut(s)	525
BglI	GCCNNNNNGGC	1 cut(s)	149
BisI	GCNGC	4 cut(s)	112, 141, 248, 528
BlsI	GCNGC	4 cut(s)	113, 142, 249, 529
Bme1390I	CCNGG	1 cut(s)	104
Bme18I	GGWCC	2 cut(s)	181, 375
BmgT120I	GGNCC	2 cut(s)	181, 375
BmiI	GGNNCC	2 cut(s)	376, 396
BmrFI	CCNGG	1 cut(s)	104
BmsI	GCATC	2 cut(s)	223, 245
BoxI	GACNNNNGTC	1 cut(s)	131
BpuEI	CTTGAG	1 cut(s)	407
BpuMI	CCSGG	1 cut(s)	104
Bsa29I	ATCGAT	1 cut(s)	231
BsaHI	GRCGYC	2 cut(s)	23, 138
BsaJI	CCNNGG	2 cut(s)	153, 417
Bse1I	ACTGG	1 cut(s)	370
BseCI	ATCGAT	1 cut(s)	231
BseDI	CCNNGG	2 cut(s)	153, 417
BseGI	GGATG	1 cut(s)	207
BseMII	CTCAG	2 cut(s)	78, 368
BseNI	ACTGG	1 cut(s)	370
BseRI	GAGGAG	1 cut(s)	404
BseX3I	CGGCCG	1 cut(s)	129
BseXI	GCAGC	3 cut(s)	123, 259, 539
BsgI	GTGCAG	1 cut(s)	384
Bsh1236I	CGCG	2 cut(s)	91, 192
Bsh1285I	CGRYCG	1 cut(s)	132
BshFI	GGCC	2 cut(s)	131, 152
BshVI	ATCGAT	1 cut(s)	231
BsiEI	CGRYCG	1 cut(s)	132
BsiHKAI	GWGCWC	2 cut(s)	72, 81
BsiSI	CCGG	1 cut(s)	104
BslFI	GGGAC	1 cut(s)	388
BsmFI	GGGAC	1 cut(s)	388
BsnI	GGCC	2 cut(s)	131, 152
Bsp1286I	GDGCHC	2 cut(s)	72, 81
Bsp143I	GATC	4 cut(s)	39, 60, 228, 394
Bsp19I	CCATGG	1 cut(s)	153
Bsp68I	TCGCGA	1 cut(s)	192
BspACI	CCGC	1 cut(s)	141
BspANI	GGCC	2 cut(s)	131, 152
BspCNI	CTCAG	2 cut(s)	77, 367
BspDI	ATCGAT	1 cut(s)	231
BspFNI	CGCG	2 cut(s)	91, 192
BspLI	GGNNCC	2 cut(s)	376, 396
BspMAI	CTGCAG	1 cut(s)	529
BspPI	GGATC	3 cut(s)	68, 389, 402
BspQI	GCTCTTC	1 cut(s)	462
BsrI	ACTGG	1 cut(s)	370
BssECI	CCNNGG	2 cut(s)	153, 417
BssMI	GATC	4 cut(s)	39, 60, 228, 394
BssNI	GRCGYC	2 cut(s)	23, 138
BssT1I	CCWWGG	2 cut(s)	153, 417
Bst4CI	ACNGT	1 cut(s)	56
Bst6I	CTCTTC	1 cut(s)	462
BstACI	GRCGYC	2 cut(s)	23, 138
BstAPI	GCANNNNNTGC	1 cut(s)	551
BstDEI	CTNAG	2 cut(s)	64, 354
BstDSI	CCRYGG	1 cut(s)	153
BstF5I	GGATG	1 cut(s)	207
BstFNI	CGCG	2 cut(s)	91, 192
BstHHI	GCGC	1 cut(s)	91
BstKTI	GATC	4 cut(s)	42, 63, 231, 397
BstMBI	GATC	4 cut(s)	39, 60, 228, 394
BstMCI	CGRYCG	1 cut(s)	132
BstMWI	GCNNNNNNNGC	5 cut(s)	76, 137, 149, 247, 551
BstNSI	RCATGY	1 cut(s)	100
BstPAI	GACNNNNGTC	1 cut(s)	131
BstSCI	CCNGG	1 cut(s)	102
BstSFI	CTRYAG	1 cut(s)	525
BstUI	CGCG	2 cut(s)	91, 192
BstV1I	GCAGC	3 cut(s)	123, 259, 539
BstX2I	RGATCY	2 cut(s)	60, 394
BstXI	CCANNNNNNTGG	1 cut(s)	450
BstYI	RGATCY	2 cut(s)	60, 394
BstZI	CGGCCG	1 cut(s)	129
Bsu15I	ATCGAT	1 cut(s)	231
BsuRI	GGCC	2 cut(s)	131, 152
BsuTUI	ATCGAT	1 cut(s)	231
BtgI	CCRYGG	1 cut(s)	153
BtgZI	GCGATG	1 cut(s)	222
BtsCI	GGATG	1 cut(s)	207
BtsI	GCAGTG	1 cut(s)	522
BtsIMutI	CAGTG	2 cut(s)	363, 522
BtuMI	TCGCGA	1 cut(s)	192
CfoI	GCGC	1 cut(s)	91
Cfr13I	GGNCC	2 cut(s)	181, 375
ClaI	ATCGAT	1 cut(s)	231
CseI	GACGC	3 cut(s)	12, 103, 146
Csp6I	GTAC	1 cut(s)	100
CviAII	CATG	4 cut(s)	97, 154, 493, 541
CviQI	GTAC	1 cut(s)	100
DdeI	CTNAG	2 cut(s)	64, 354
DpnI	GATC	4 cut(s)	41, 62, 230, 396
DpnII	GATC	4 cut(s)	39, 60, 228, 394
DrdI	GACNNNNNNGTC	1 cut(s)	113
DseDI	GACNNNNNNGTC	1 cut(s)	113
EaeI	YGGCCR	1 cut(s)	129
EagI	CGGCCG	1 cut(s)	129
Eam1104I	CTCTTC	1 cut(s)	462
EarI	CTCTTC	1 cut(s)	462
Ecl136II	GAGCTC	2 cut(s)	70, 79
EclXI	CGGCCG	1 cut(s)	129
Eco130I	CCWWGG	2 cut(s)	153, 417
Eco24I	GRGCYC	2 cut(s)	72, 81
Eco47I	GGWCC	2 cut(s)	181, 375
Eco52I	CGGCCG	1 cut(s)	129
Eco53kI	GAGCTC	2 cut(s)	70, 79
Eco57I	CTGAAG	4 cut(s)	146, 263, 486, 576
EcoICRI	GAGCTC	2 cut(s)	70, 79
EcoO109I	RGGNCCY	1 cut(s)	375
EcoT14I	CCWWGG	2 cut(s)	153, 417
EcoT22I	ATGCAT	1 cut(s)	238
EcoT38I	GRGCYC	2 cut(s)	72, 81
ErhI	CCWWGG	2 cut(s)	153, 417
FaeI	CATG	4 cut(s)	100, 157, 496, 544
FaqI	GGGAC	1 cut(s)	388
FatI	CATG	4 cut(s)	96, 153, 492, 540
FauNDI	CATATG	1 cut(s)	550
FblI	GTMKAC	1 cut(s)	135
Fnu4HI	GCNGC	4 cut(s)	112, 141, 248, 528
FokI	GGATG	1 cut(s)	194
FriOI	GRGCYC	2 cut(s)	72, 81
Fsp4HI	GCNGC	4 cut(s)	112, 141, 248, 528
FspBI	CTAG	2 cut(s)	203, 512
GlaI	GCGC	1 cut(s)	90
GluI	GCNGC	4 cut(s)	112, 141, 248, 528
HaeIII	GGCC	2 cut(s)	131, 152
HapII	CCGG	1 cut(s)	104
HgaI	GACGC	3 cut(s)	12, 103, 146
HhaI	GCGC	1 cut(s)	91
Hin1I	GRCGYC	2 cut(s)	23, 138
Hin1II	CATG	4 cut(s)	100, 157, 496, 544
Hin6I	GCGC	1 cut(s)	89
HinP1I	GCGC	1 cut(s)	89
HincII	GTYRAC	2 cut(s)	10, 136
HindII	GTYRAC	2 cut(s)	10, 136
HindIII	AAGCTT	1 cut(s)	383
HinfI	GANTC	2 cut(s)	32, 476
HpaII	CCGG	1 cut(s)	104
HphI	GGTGA	1 cut(s)	109
Hpy166II	GTNNAC	2 cut(s)	10, 136
Hpy188I	TCNGA	3 cut(s)	60, 67, 614
Hpy188III	TCNNGA	3 cut(s)	191, 296, 344
Hpy8I	GTNNAC	2 cut(s)	10, 136
Hpy99I	CGWCG	4 cut(s)	28, 137, 140, 197
HpyAV	CCTTC	5 cut(s)	142, 256, 388, 495, 511
HpyCH4III	ACNGT	1 cut(s)	56
HpyCH4V	TGCA	3 cut(s)	236, 401, 527
HpyF10VI	GCNNNNNNNGC	5 cut(s)	76, 137, 149, 247, 551
HpyF3I	CTNAG	2 cut(s)	64, 354
Hsp92I	GRCGYC	2 cut(s)	23, 138
Hsp92II	CATG	4 cut(s)	100, 157, 496, 544
HspAI	GCGC	1 cut(s)	89
Kzo9I	GATC	4 cut(s)	39, 60, 228, 394
LguI	GCTCTTC	1 cut(s)	462
LmnI	GCTCC	3 cut(s)	75, 157, 586
LpnPI	CCDG	8 cut(s)	117, 149, 155, 309, 351, 357, 411, 458
Lsp1109I	GCAGC	3 cut(s)	123, 259, 539
LweI	GCATC	2 cut(s)	223, 245
MaeI	CTAG	2 cut(s)	203, 512
MaeIII	GTNAC	2 cut(s)	115, 520
MalI	GATC	4 cut(s)	41, 62, 230, 396
MboI	GATC	4 cut(s)	39, 60, 228, 394
MboII	GAAGA	2 cut(s)	479, 601
MflI	RGATCY	2 cut(s)	60, 394
MhlI	GDGCHC	2 cut(s)	72, 81
MluCI	AATT	4 cut(s)	257, 273, 316, 562
MlyI	GAGTC	1 cut(s)	26
MmeI	TCCRAC	2 cut(s)	9, 38
MnlI	CCTC	4 cut(s)	382, 385, 417, 491
Mph1103I	ATGCAT	1 cut(s)	238
MseI	TTAA	1 cut(s)	534
MslI	CAYNNNNRTG	1 cut(s)	448
MspI	CCGG	1 cut(s)	104
MspR9I	CCNGG	1 cut(s)	104
MvnI	CGCG	2 cut(s)	91, 192
MwoI	GCNNNNNNNGC	5 cut(s)	76, 137, 149, 247, 551
NciI	CCSGG	1 cut(s)	104
NcoI	CCATGG	1 cut(s)	153
NdeI	CATATG	1 cut(s)	550
NdeII	GATC	4 cut(s)	39, 60, 228, 394
NlaIII	CATG	4 cut(s)	100, 157, 496, 544
NlaIV	GGNNCC	2 cut(s)	376, 396
NmuCI	GTSAC	2 cut(s)	115, 520
NruI	TCGCGA	1 cut(s)	192
NsiI	ATGCAT	1 cut(s)	238
NspI	RCATGY	1 cut(s)	100
OliI	CACNNNNGTG	1 cut(s)	448
PciI	ACATGT	1 cut(s)	96
PciSI	GCTCTTC	1 cut(s)	462
PcsI	WCGNNNNNNNCGW	1 cut(s)	141
PfeI	GAWTC	1 cut(s)	476
PkrI	GCNGC	4 cut(s)	113, 142, 249, 529
PleI	GAGTC	1 cut(s)	26
PpsI	GAGTC	1 cut(s)	26
PpuMI	RGGWCCY	1 cut(s)	375
PscI	ACATGT	1 cut(s)	96
PshAI	GACNNNNGTC	1 cut(s)	131
PshBI	ATTAAT	1 cut(s)	534
PsiI	TTATAA	1 cut(s)	458
Psp124BI	GAGCTC	2 cut(s)	72, 81
Psp5II	RGGWCCY	1 cut(s)	375
PspN4I	GGNNCC	2 cut(s)	376, 396
PspPI	GGNCC	2 cut(s)	181, 375
PspPPI	RGGWCCY	1 cut(s)	375
PstI	CTGCAG	1 cut(s)	529
PsuI	RGATCY	2 cut(s)	60, 394
RruI	TCGCGA	1 cut(s)	192
RsaI	GTAC	1 cut(s)	101
RsaNI	GTAC	1 cut(s)	100
RseI	CAYNNNNRTG	1 cut(s)	448
SacI	GAGCTC	2 cut(s)	72, 81
SalI	GTCGAC	1 cut(s)	134
SapI	GCTCTTC	1 cut(s)	462
SaqAI	TTAA	1 cut(s)	534
SatI	GCNGC	4 cut(s)	112, 141, 248, 528
Sau3AI	GATC	4 cut(s)	39, 60, 228, 394
Sau96I	GGNCC	2 cut(s)	181, 375
SchI	GAGTC	1 cut(s)	26
ScrFI	CCNGG	1 cut(s)	104
SduI	GDGCHC	2 cut(s)	72, 81
SfaNI	GCATC	2 cut(s)	223, 245
SfcI	CTRYAG	1 cut(s)	525
SgrDI	CGTCGACG	1 cut(s)	134
SinI	GGWCC	2 cut(s)	181, 375
SmiMI	CAYNNNNRTG	1 cut(s)	448
SmlI	CTYRAG	1 cut(s)	386
SmoI	CTYRAG	1 cut(s)	386
Sse9I	AATT	4 cut(s)	257, 273, 316, 562
SsiI	CCGC	1 cut(s)	141
SspMI	CTAG	2 cut(s)	203, 512
SstI	GAGCTC	2 cut(s)	72, 81
StyD4I	CCNGG	1 cut(s)	102
StyI	CCWWGG	2 cut(s)	153, 417
TaaI	ACNGT	1 cut(s)	56
TaqI	TCGA	3 cut(s)	135, 231, 308
TaqII	GACCGA	1 cut(s)	198
TasI	AATT	4 cut(s)	257, 273, 316, 562
TauI	GCSGC	1 cut(s)	143
TfiI	GAWTC	1 cut(s)	476
Tru1I	TTAA	1 cut(s)	534
Tru9I	TTAA	1 cut(s)	534
TscAI	CASTG	2 cut(s)	370, 529
TseFI	GTSAC	2 cut(s)	115, 520
TseI	GCWGC	3 cut(s)	111, 247, 527
Tsp45I	GTSAC	2 cut(s)	115, 520
TspRI	CASTG	2 cut(s)	370, 529
VpaK11BI	GGWCC	2 cut(s)	181, 375
VspI	ATTAAT	1 cut(s)	534
XapI	RAATTY	1 cut(s)	316
XceI	RCATGY	1 cut(s)	100
XmiI	GTMKAC	1 cut(s)	135
XspI	CTAG	2 cut(s)	203, 512
Zsp2I	ATGCAT	1 cut(s)	238

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