Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0001324

Physical Location & Seq

Genomic Coordinates Forward (+)

41648657 .. 41663761

Gene Structure 15105 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG219100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGGAGGCAGAGAAAGCAGGGGCGTCGTTGGACTCGCTGATCGCAGGGTTCAACAGTCAGATTTCGGAGCTCCAAGAACTCGTTATTGCGCGAAACAAAACTGATCGATGCATCGCTGAAGCAGCAAAGGAAATTGAGGGATATGTCAGTTTATGCCCCACCTCATGTTCCAGAAAGGATGTCAATGTTGAATCTGGATACAAACAGATGGTAGAGAAAAATGGTCGTTCCACCCCACCATTGTGGTTTATTAGTGCCGAAGAGCTGGATTCCTTGTCATCATACATGAGAGGAAGGTTTACACTAGAGAAGGTCAATGCAGCTATTAGTGACATGGCAACATATGCTGAAGCAAATTATCAGCTCATAGCTGCTCCAAAGAAGAATGTGGCAGGAGATCGATGGGAAAAAGCCTTGGAAATAAGAGATATAGCAATGCATAAAGCAGTAAAGGGAAAACACTTCTTTCTCGAAACTGACATGAAGGGACCATCCTTGAAGCTTGACAACACTGGAAAAGCAATACTAACTGTCCTTCGTCACCTTGGTCGACGTGTAAGTGAGACACGGATTGGTCATCATCGGGTGATCATTCTTTTGAAGCCTCATTGA

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

203

Amino Acids

22.61

Weight (kDa)

8.91

Isoelectric Point (pI)

46.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SKA1	PF07160	69 - 193	5.8e-50	Spindle and kinetochore-associated protein 1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
AccI	GTMKAC	1 cut(s)	550
AccII	CGCG	1 cut(s)	91
AcuI	CTGAAG	2 cut(s)	138, 369
AcyI	GRCGYC	1 cut(s)	23
AflIII	ACRYGT	1 cut(s)	553
AgsI	TTSAA	4 cut(s)	52, 191, 499, 601
AjiI	CACGTC	1 cut(s)	554
AleI	CACNNNNGTG	1 cut(s)	241
AluBI	AGCT	6 cut(s)	70, 265, 323, 364, 371, 502
AluI	AGCT	6 cut(s)	70, 265, 323, 364, 371, 502
Alw21I	GWGCWC	1 cut(s)	72
Alw26I	GTCTC	1 cut(s)	557
ApeKI	GCWGC	3 cut(s)	122, 320, 371
AspLEI	GCGC	1 cut(s)	91
AspS9I	GGNCC	1 cut(s)	488
AsuHPI	GGTGA	2 cut(s)	533, 598
AvaII	GGWCC	1 cut(s)	488
BanII	GRGCYC	1 cut(s)	72
Bbv12I	GWGCWC	1 cut(s)	72
BbvI	GCAGC	3 cut(s)	134, 332, 358
BccI	CCATC	3 cut(s)	202, 396, 499
BcgI	CGANNNNNNTGC	2 cut(s)	6, 40
BciVI	GTATCC	1 cut(s)	191
BclI	TGATCA	1 cut(s)	588
BcoDI	GTCTC	1 cut(s)	557
BfaI	CTAG	1 cut(s)	305
BfuI	GTATCC	1 cut(s)	191
BisI	GCNGC	3 cut(s)	123, 321, 372
BlsI	GCNGC	3 cut(s)	124, 322, 373
Bme18I	GGWCC	1 cut(s)	488
BmgBI	CACGTC	1 cut(s)	554
BmgT120I	GGNCC	1 cut(s)	488
BmiI	GGNNCC	1 cut(s)	489
BmsI	GCATC	2 cut(s)	98, 120
Bsa29I	ATCGAT	2 cut(s)	106, 400
BsaHI	GRCGYC	1 cut(s)	23
BsaJI	CCNNGG	2 cut(s)	414, 544
Bse1I	ACTGG	1 cut(s)	517
Bse3DI	GCAATG	1 cut(s)	441
BseCI	ATCGAT	2 cut(s)	106, 400
BseDI	CCNNGG	2 cut(s)	414, 544
BseGI	GGATG	2 cut(s)	184, 491
BseMI	GCAATG	1 cut(s)	441
BseNI	ACTGG	1 cut(s)	517
BseXI	GCAGC	3 cut(s)	134, 332, 358
Bsh1236I	CGCG	1 cut(s)	91
BshVI	ATCGAT	2 cut(s)	106, 400
BsiHKAI	GWGCWC	1 cut(s)	72
BslFI	GGGAC	1 cut(s)	501
BsmAI	GTCTC	1 cut(s)	557
BsmFI	GGGAC	1 cut(s)	501
Bsp1286I	GDGCHC	1 cut(s)	72
Bsp143I	GATC	4 cut(s)	39, 103, 397, 588
BspDI	ATCGAT	2 cut(s)	106, 400
BspFNI	CGCG	1 cut(s)	91
BspLI	GGNNCC	1 cut(s)	489
BspQI	GCTCTTC	1 cut(s)	255
BsrDI	GCAATG	1 cut(s)	441
BsrI	ACTGG	1 cut(s)	517
BssECI	CCNNGG	2 cut(s)	414, 544
BssMI	GATC	4 cut(s)	39, 103, 397, 588
BssNI	GRCGYC	1 cut(s)	23
BssT1I	CCWWGG	2 cut(s)	414, 544
Bst4CI	ACNGT	2 cut(s)	56, 532
Bst6I	CTCTTC	1 cut(s)	255
BstACI	GRCGYC	1 cut(s)	23
BstAPI	GCANNNNNTGC	1 cut(s)	344
BstF5I	GGATG	2 cut(s)	184, 491
BstFNI	CGCG	1 cut(s)	91
BstHHI	GCGC	1 cut(s)	91
BstKTI	GATC	4 cut(s)	42, 106, 400, 591
BstMAI	GTCTC	1 cut(s)	557
BstMBI	GATC	4 cut(s)	39, 103, 397, 588
BstMWI	GCNNNNNNNGC	3 cut(s)	14, 122, 344
BstUI	CGCG	1 cut(s)	91
BstV1I	GCAGC	3 cut(s)	134, 332, 358
BstXI	CCANNNNNNTGG	1 cut(s)	243
Bsu15I	ATCGAT	2 cut(s)	106, 400
BsuI	GTATCC	1 cut(s)	191
BsuTUI	ATCGAT	2 cut(s)	106, 400
BtgZI	GCGATG	1 cut(s)	97
BtrI	CACGTC	1 cut(s)	554
BtsCI	GGATG	2 cut(s)	184, 491
BtsIMutI	CAGTG	1 cut(s)	510
CfoI	GCGC	1 cut(s)	91
Cfr13I	GGNCC	1 cut(s)	488
ClaI	ATCGAT	2 cut(s)	106, 400
CseI	GACGC	1 cut(s)	12
CviAII	CATG	4 cut(s)	165, 286, 334, 481
CviJI	RGCY	8 cut(s)	70, 265, 323, 364, 371, 413, 502, 604
CviKI_1	RGCY	8 cut(s)	70, 265, 323, 364, 371, 413, 502, 604
DpnI	GATC	4 cut(s)	41, 105, 399, 590
DpnII	GATC	4 cut(s)	39, 103, 397, 588
Eam1104I	CTCTTC	1 cut(s)	255
EarI	CTCTTC	1 cut(s)	255
Ecl136II	GAGCTC	1 cut(s)	70
Eco130I	CCWWGG	2 cut(s)	414, 544
Eco24I	GRGCYC	1 cut(s)	72
Eco47I	GGWCC	1 cut(s)	488
Eco53kI	GAGCTC	1 cut(s)	70
Eco57I	CTGAAG	2 cut(s)	138, 369
EcoICRI	GAGCTC	1 cut(s)	70
EcoT14I	CCWWGG	2 cut(s)	414, 544
EcoT22I	ATGCAT	2 cut(s)	113, 441
EcoT38I	GRGCYC	1 cut(s)	72
ErhI	CCWWGG	2 cut(s)	414, 544
FaeI	CATG	4 cut(s)	168, 289, 337, 484
FaqI	GGGAC	1 cut(s)	501
FatI	CATG	4 cut(s)	164, 285, 333, 480
FauNDI	CATATG	1 cut(s)	343
FbaI	TGATCA	1 cut(s)	588
FblI	GTMKAC	1 cut(s)	550
Fnu4HI	GCNGC	3 cut(s)	123, 321, 372
FokI	GGATG	2 cut(s)	191, 478
FriOI	GRGCYC	1 cut(s)	72
Fsp4HI	GCNGC	3 cut(s)	123, 321, 372
FspBI	CTAG	1 cut(s)	305
GlaI	GCGC	1 cut(s)	90
GluI	GCNGC	3 cut(s)	123, 321, 372
HgaI	GACGC	1 cut(s)	12
HhaI	GCGC	1 cut(s)	91
Hin1I	GRCGYC	1 cut(s)	23
Hin1II	CATG	4 cut(s)	168, 289, 337, 484
Hin6I	GCGC	1 cut(s)	89
HinP1I	GCGC	1 cut(s)	89
HincII	GTYRAC	1 cut(s)	551
HindII	GTYRAC	1 cut(s)	551
HindIII	AAGCTT	1 cut(s)	500
HinfI	GANTC	3 cut(s)	32, 191, 269
HphI	GGTGA	2 cut(s)	533, 598
Hpy166II	GTNNAC	2 cut(s)	300, 551
Hpy188I	TCNGA	2 cut(s)	60, 67
Hpy188III	TCNNGA	3 cut(s)	171, 195, 470
Hpy8I	GTNNAC	2 cut(s)	300, 551
Hpy99I	CGWCG	2 cut(s)	28, 555
HpyAV	CCTTC	4 cut(s)	288, 304, 478, 545
HpyCH4III	ACNGT	2 cut(s)	56, 532
HpyCH4IV	ACGT	1 cut(s)	553
HpyCH4V	TGCA	3 cut(s)	111, 320, 439
HpyF10VI	GCNNNNNNNGC	3 cut(s)	14, 122, 344
HpySE526I	ACGT	1 cut(s)	553
Hsp92I	GRCGYC	1 cut(s)	23
Hsp92II	CATG	4 cut(s)	168, 289, 337, 484
HspAI	GCGC	1 cut(s)	89
Ksp22I	TGATCA	1 cut(s)	588
Kzo9I	GATC	4 cut(s)	39, 103, 397, 588
LguI	GCTCTTC	1 cut(s)	255
LmnI	GCTCC	3 cut(s)	67, 75, 379
LpnPI	CCDG	7 cut(s)	3, 30, 180, 184, 251, 378, 498
Lsp1109I	GCAGC	3 cut(s)	134, 332, 358
LweI	GCATC	2 cut(s)	98, 120
MaeI	CTAG	1 cut(s)	305
MaeII	ACGT	1 cut(s)	553
MaeIII	GTNAC	2 cut(s)	329, 539
MalI	GATC	4 cut(s)	41, 105, 399, 590
MboI	GATC	4 cut(s)	39, 103, 397, 588
MboII	GAAGA	2 cut(s)	272, 394
MhlI	GDGCHC	1 cut(s)	72
MluCI	AATT	2 cut(s)	132, 355
MlyI	GAGTC	1 cut(s)	26
MmeI	TCCRAC	1 cut(s)	9
MnlI	CCTC	3 cut(s)	130, 172, 284
Mph1103I	ATGCAT	2 cut(s)	113, 441
MslI	CAYNNNNRTG	1 cut(s)	241
MvnI	CGCG	1 cut(s)	91
MwoI	GCNNNNNNNGC	3 cut(s)	14, 122, 344
NdeI	CATATG	1 cut(s)	343
NdeII	GATC	4 cut(s)	39, 103, 397, 588
NlaIII	CATG	4 cut(s)	168, 289, 337, 484
NlaIV	GGNNCC	1 cut(s)	489
NmuCI	GTSAC	2 cut(s)	329, 539
NsiI	ATGCAT	2 cut(s)	113, 441
OliI	CACNNNNGTG	1 cut(s)	241
PciSI	GCTCTTC	1 cut(s)	255
PfeI	GAWTC	2 cut(s)	191, 269
PkrI	GCNGC	3 cut(s)	124, 322, 373
PleI	GAGTC	1 cut(s)	26
PpsI	GAGTC	1 cut(s)	26
Psp124BI	GAGCTC	1 cut(s)	72
PspN4I	GGNNCC	1 cut(s)	489
PspPI	GGNCC	1 cut(s)	488
RseI	CAYNNNNRTG	1 cut(s)	241
SacI	GAGCTC	1 cut(s)	72
SalI	GTCGAC	1 cut(s)	549
SapI	GCTCTTC	1 cut(s)	255
SatI	GCNGC	3 cut(s)	123, 321, 372
Sau3AI	GATC	4 cut(s)	39, 103, 397, 588
Sau96I	GGNCC	1 cut(s)	488
SchI	GAGTC	1 cut(s)	26
SduI	GDGCHC	1 cut(s)	72
SfaNI	GCATC	2 cut(s)	98, 120
SinI	GGWCC	1 cut(s)	488
SmiMI	CAYNNNNRTG	1 cut(s)	241
Sse9I	AATT	2 cut(s)	132, 355
SspMI	CTAG	1 cut(s)	305
SstI	GAGCTC	1 cut(s)	72
StyI	CCWWGG	2 cut(s)	414, 544
TaaI	ACNGT	2 cut(s)	56, 532
TaiI	ACGT	1 cut(s)	556
TaqI	TCGA	4 cut(s)	106, 400, 471, 550
TasI	AATT	2 cut(s)	132, 355
TfiI	GAWTC	2 cut(s)	191, 269
TscAI	CASTG	1 cut(s)	517
TseFI	GTSAC	2 cut(s)	329, 539
TseI	GCWGC	3 cut(s)	122, 320, 371
Tsp45I	GTSAC	2 cut(s)	329, 539
TspDTI	ATGAA	1 cut(s)	497
TspGWI	ACGGA	1 cut(s)	583
TspRI	CASTG	1 cut(s)	517
VpaK11BI	GGWCC	1 cut(s)	488
XmiI	GTMKAC	1 cut(s)	550
XspI	CTAG	1 cut(s)	305
Zsp2I	ATGCAT	2 cut(s)	113, 441

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