Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0001324

Physical Location & Seq

Genomic Coordinates Reverse (-)

26668289 .. 26671281

Gene Structure 2993 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00305910.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 756 bp

ATGCTTCTCATTTTCCCGCCAAAACAACTTTCCCAACTTGAAAACGAAAATCGAAGATCGAAACTTTCTGAAGAGAGAGAGAGAGAGAGAGAGATGGAGGCGGAGAAAGCAGGGGCATCGCTGGACTCGCTGATCGCCGGGTTCAACAGTCGGATCTCGGAGCTCCAAGAGCTCGTTATTGCGCGAAACATGTATCCGGCCAGCACCGTCTCCGATTTGTCGGCCGTCGATGCCGCCGTGAAGGCCATGGAGCTTCAGGTCCAGGCCATCAAGGACCGGGTTCGCGACGAAACCCTTGCCATCCCCAAAGCAAAAAAACTGATCGATGAATCGCTGAAGCAGCGAAGGAAATTGAAGGATATGTCAATTTATGCCCCCACTCATTTTCCTGAAAGAATGTCGATGTTGAATTTGGATACAAATAGATGGTCTGATTTTGGTTATCAATTATCATGCAGGTGGCAGGAGATCGATGGGAAAAAGCCTTGGTCCTTACTCCCACTTTTGTCAGGATTGGGGCTGCCTACCTCATATTTTGTCGCTCATTGTTCATCTGTACTAAAAGAAATAAGAGATATAGCAATGCATGAAGCAGTAAAGGGAAAACACTTCTTTCTTGAAACTGACATGAAGGGACCATCCTTGAAGCTTGACAACACTGGAAAAGCAATACTAACTGTCCTTCGTCACCTTGGTCGTGTAAGTGAGACACGGATTGGTCATCATCGGGTGATCATTCTTTTGAAGCCTGATTGA

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

251

Amino Acids

28.58

Weight (kDa)

9.13

Isoelectric Point (pI)

44.03

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SKA1	PF07160	40 - 134	2e-22	Spindle and kinetochore-associated protein 1
SKA1	PF07160	184 - 241	3.2e-22	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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AarI	CACCTGC	1 cut(s)	447
Acc36I	ACCTGC	1 cut(s)	447
AccII	CGCG	2 cut(s)	184, 285
AciI	CCGC	3 cut(s)	17, 101, 234
AclWI	GGATC	1 cut(s)	161
AcoI	YGGCCR	2 cut(s)	198, 222
AcsI	RAATTY	1 cut(s)	409
AcuI	CTGAAG	3 cut(s)	90, 239, 356
AfaI	GTAC	1 cut(s)	558
AflIII	ACRYGT	1 cut(s)	189
AgsI	TTSAA	7 cut(s)	41, 145, 355, 409, 620, 646, 745
AjnI	CCWGG	1 cut(s)	261
AjuI	GAANNNNNNNTTGG	2 cut(s)	13, 45
AluBI	AGCT	4 cut(s)	163, 172, 253, 649
AluI	AGCT	4 cut(s)	163, 172, 253, 649
Alw21I	GWGCWC	2 cut(s)	165, 174
Alw26I	GTCTC	2 cut(s)	214, 701
AlwI	GGATC	1 cut(s)	161
AoxI	GGCC	4 cut(s)	198, 222, 243, 264
ApeKI	GCWGC	2 cut(s)	340, 520
ApoI	RAATTY	1 cut(s)	409
ArsI	GACNNNNNNTTYG	2 cut(s)	413, 445
AspLEI	GCGC	1 cut(s)	184
AspS9I	GGNCC	4 cut(s)	259, 274, 489, 635
AsuC2I	CCSGG	2 cut(s)	139, 278
AsuHPI	GGTGA	2 cut(s)	680, 742
AvaII	GGWCC	4 cut(s)	259, 274, 489, 635
BanII	GRGCYC	2 cut(s)	165, 174
Bbv12I	GWGCWC	2 cut(s)	165, 174
BbvI	GCAGC	2 cut(s)	352, 507
BccI	CCATC	6 cut(s)	88, 275, 308, 420, 467, 646
BceAI	ACGGC	2 cut(s)	209, 221
BcgI	CGANNNNNNTGC	4 cut(s)	99, 133, 278, 312
BciT130I	CCWGG	1 cut(s)	263
BciVI	GTATCC	2 cut(s)	204, 409
BclI	TGATCA	1 cut(s)	732
BcnI	CCSGG	2 cut(s)	139, 278
BcoDI	GTCTC	2 cut(s)	214, 701
BfuAI	ACCTGC	1 cut(s)	447
BfuI	GTATCC	2 cut(s)	204, 409
BglI	GCCNNNNNGGC	1 cut(s)	242
BisI	GCNGC	3 cut(s)	234, 341, 521
BlsI	GCNGC	3 cut(s)	235, 342, 522
Bme1390I	CCNGG	3 cut(s)	139, 263, 278
Bme18I	GGWCC	4 cut(s)	259, 274, 489, 635
BmgT120I	GGNCC	4 cut(s)	259, 274, 489, 635
BmiI	GGNNCC	1 cut(s)	636
BmrFI	CCNGG	3 cut(s)	139, 263, 278
BmsI	GCATC	2 cut(s)	125, 220
BpuMI	CCSGG	2 cut(s)	139, 278
Bsa29I	ATCGAT	2 cut(s)	324, 471
BsaJI	CCNNGG	3 cut(s)	246, 485, 691
Bse1I	ACTGG	1 cut(s)	664
Bse3DI	GCAATG	1 cut(s)	588
BseBI	CCWGG	1 cut(s)	263
BseCI	ATCGAT	2 cut(s)	324, 471
BseDI	CCNNGG	3 cut(s)	246, 485, 691
BseGI	GGATG	2 cut(s)	300, 638
BseMI	GCAATG	1 cut(s)	588
BseNI	ACTGG	1 cut(s)	664
BseX3I	CGGCCG	1 cut(s)	222
BseXI	GCAGC	2 cut(s)	352, 507
Bsh1236I	CGCG	2 cut(s)	184, 285
Bsh1285I	CGRYCG	1 cut(s)	225
BshFI	GGCC	4 cut(s)	200, 224, 245, 266
BshVI	ATCGAT	2 cut(s)	324, 471
BsiEI	CGRYCG	1 cut(s)	225
BsiHKAI	GWGCWC	2 cut(s)	165, 174
BsiSI	CCGG	3 cut(s)	138, 197, 277
BslFI	GGGAC	1 cut(s)	648
BsmAI	GTCTC	2 cut(s)	214, 701
BsmBI	CGTCTC	1 cut(s)	214
BsmFI	GGGAC	1 cut(s)	648
BsnI	GGCC	4 cut(s)	200, 224, 245, 266
Bsp1286I	GDGCHC	2 cut(s)	165, 174
Bsp143I	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
Bsp19I	CCATGG	1 cut(s)	246
Bsp68I	TCGCGA	1 cut(s)	285
BspACI	CCGC	3 cut(s)	17, 101, 234
BspANI	GGCC	4 cut(s)	200, 224, 245, 266
BspDI	ATCGAT	2 cut(s)	324, 471
BspFNI	CGCG	2 cut(s)	184, 285
BspLI	GGNNCC	1 cut(s)	636
BspMI	ACCTGC	1 cut(s)	447
BspPI	GGATC	1 cut(s)	161
BsrDI	GCAATG	1 cut(s)	588
BsrI	ACTGG	1 cut(s)	664
BssECI	CCNNGG	3 cut(s)	246, 485, 691
BssMI	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
BssT1I	CCWWGG	3 cut(s)	246, 485, 691
Bst2UI	CCWGG	1 cut(s)	263
Bst4CI	ACNGT	3 cut(s)	149, 208, 679
Bst6I	CTCTTC	1 cut(s)	66
BstC8I	GCNNGC	1 cut(s)	202
BstDSI	CCRYGG	1 cut(s)	246
BstF5I	GGATG	2 cut(s)	300, 638
BstFNI	CGCG	2 cut(s)	184, 285
BstHHI	GCGC	1 cut(s)	184
BstKTI	GATC	6 cut(s)	59, 135, 156, 324, 471, 735
BstMAI	GTCTC	2 cut(s)	214, 701
BstMBI	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
BstMCI	CGRYCG	1 cut(s)	225
BstMWI	GCNNNNNNNGC	6 cut(s)	107, 127, 169, 230, 242, 340
BstNI	CCWGG	1 cut(s)	263
BstNSI	RCATGY	1 cut(s)	193
BstSCI	CCNGG	3 cut(s)	137, 261, 276
BstUI	CGCG	2 cut(s)	184, 285
BstV1I	GCAGC	2 cut(s)	352, 507
BstX2I	RGATCY	1 cut(s)	153
BstYI	RGATCY	1 cut(s)	153
BstZI	CGGCCG	1 cut(s)	222
Bsu15I	ATCGAT	2 cut(s)	324, 471
BsuI	GTATCC	2 cut(s)	204, 409
BsuRI	GGCC	4 cut(s)	200, 224, 245, 266
BsuTUI	ATCGAT	2 cut(s)	324, 471
BtgI	CCRYGG	1 cut(s)	246
BtgZI	GCGATG	1 cut(s)	102
BtsCI	GGATG	2 cut(s)	300, 638
BtsIMutI	CAGTG	1 cut(s)	657
BtuMI	TCGCGA	1 cut(s)	285
BveI	ACCTGC	1 cut(s)	447
Cac8I	GCNNGC	1 cut(s)	202
CfoI	GCGC	1 cut(s)	184
Cfr13I	GGNCC	4 cut(s)	259, 274, 489, 635
ClaI	ATCGAT	2 cut(s)	324, 471
Csp6I	GTAC	1 cut(s)	557
CviAII	CATG	5 cut(s)	190, 247, 453, 587, 628
CviQI	GTAC	1 cut(s)	557
DpnI	GATC	6 cut(s)	58, 134, 155, 323, 470, 734
DpnII	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
EaeI	YGGCCR	2 cut(s)	198, 222
EagI	CGGCCG	1 cut(s)	222
Eam1104I	CTCTTC	1 cut(s)	66
EarI	CTCTTC	1 cut(s)	66
EciI	GGCGGA	1 cut(s)	116
Ecl136II	GAGCTC	2 cut(s)	163, 172
EclXI	CGGCCG	1 cut(s)	222
Eco130I	CCWWGG	3 cut(s)	246, 485, 691
Eco24I	GRGCYC	2 cut(s)	165, 174
Eco47I	GGWCC	4 cut(s)	259, 274, 489, 635
Eco52I	CGGCCG	1 cut(s)	222
Eco53kI	GAGCTC	2 cut(s)	163, 172
Eco57I	CTGAAG	3 cut(s)	90, 239, 356
EcoICRI	GAGCTC	2 cut(s)	163, 172
EcoRII	CCWGG	1 cut(s)	261
EcoT14I	CCWWGG	3 cut(s)	246, 485, 691
EcoT22I	ATGCAT	1 cut(s)	588
EcoT38I	GRGCYC	2 cut(s)	165, 174
ErhI	CCWWGG	3 cut(s)	246, 485, 691
Esp3I	CGTCTC	1 cut(s)	214
FaeI	CATG	5 cut(s)	193, 250, 456, 590, 631
FaiI	YATR	9 cut(s)	191, 248, 362, 372, 454, 532, 578, 588, 629
FaqI	GGGAC	1 cut(s)	648
FatI	CATG	5 cut(s)	189, 246, 452, 586, 627
FauI	CCCGC	1 cut(s)	24
FbaI	TGATCA	1 cut(s)	732
Fnu4HI	GCNGC	3 cut(s)	234, 341, 521
FokI	GGATG	2 cut(s)	287, 625
FriOI	GRGCYC	2 cut(s)	165, 174
Fsp4HI	GCNGC	3 cut(s)	234, 341, 521
GlaI	GCGC	1 cut(s)	183
GluI	GCNGC	3 cut(s)	234, 341, 521
HaeIII	GGCC	4 cut(s)	200, 224, 245, 266
HapII	CCGG	3 cut(s)	138, 197, 277
HhaI	GCGC	1 cut(s)	184
Hin1II	CATG	5 cut(s)	193, 250, 456, 590, 631
Hin6I	GCGC	1 cut(s)	182
HinP1I	GCGC	1 cut(s)	182
HindIII	AAGCTT	1 cut(s)	647
HinfI	GANTC	2 cut(s)	125, 329
HpaII	CCGG	3 cut(s)	138, 197, 277
HphI	GGTGA	2 cut(s)	680, 742
Hpy188I	TCNGA	5 cut(s)	70, 153, 160, 214, 433
Hpy188III	TCNNGA	4 cut(s)	284, 389, 510, 617
Hpy99I	CGWCG	2 cut(s)	230, 290
HpyAV	CCTTC	5 cut(s)	235, 339, 349, 625, 692
HpyCH4III	ACNGT	3 cut(s)	149, 208, 679
HpyCH4V	TGCA	2 cut(s)	456, 586
HpyF10VI	GCNNNNNNNGC	6 cut(s)	107, 127, 169, 230, 242, 340
Hsp92II	CATG	5 cut(s)	193, 250, 456, 590, 631
HspAI	GCGC	1 cut(s)	182
Ksp22I	TGATCA	1 cut(s)	732
Kzo9I	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
LmnI	GCTCC	3 cut(s)	160, 168, 250
Lsp1109I	GCAGC	2 cut(s)	352, 507
LweI	GCATC	2 cut(s)	125, 220
MaeIII	GTNAC	1 cut(s)	686
MalI	GATC	6 cut(s)	58, 134, 155, 323, 470, 734
MboI	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
MboII	GAAGA	2 cut(s)	66, 83
MflI	RGATCY	1 cut(s)	153
MhlI	GDGCHC	2 cut(s)	165, 174
MluCI	AATT	4 cut(s)	350, 366, 409, 446
MlyI	GAGTC	1 cut(s)	119
MmeI	TCCRAC	1 cut(s)	131
MnlI	CCTC	2 cut(s)	91, 538
Mph1103I	ATGCAT	1 cut(s)	588
MslI	CAYNNNNRTG	1 cut(s)	457
MspI	CCGG	3 cut(s)	138, 197, 277
MspR9I	CCNGG	3 cut(s)	139, 263, 278
MvaI	CCWGG	1 cut(s)	263
MvnI	CGCG	2 cut(s)	184, 285
MwoI	GCNNNNNNNGC	6 cut(s)	107, 127, 169, 230, 242, 340
NciI	CCSGG	2 cut(s)	139, 278
NcoI	CCATGG	1 cut(s)	246
NdeII	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
NlaIII	CATG	5 cut(s)	193, 250, 456, 590, 631
NlaIV	GGNNCC	1 cut(s)	636
NmuCI	GTSAC	1 cut(s)	686
NruI	TCGCGA	1 cut(s)	285
NsiI	ATGCAT	1 cut(s)	588
NspI	RCATGY	1 cut(s)	193
PaqCI	CACCTGC	1 cut(s)	447
PciI	ACATGT	1 cut(s)	189
PcsI	WCGNNNNNNNCGW	1 cut(s)	234
PfeI	GAWTC	1 cut(s)	329
PkrI	GCNGC	3 cut(s)	235, 342, 522
PleI	GAGTC	1 cut(s)	119
PpsI	GAGTC	1 cut(s)	119
PscI	ACATGT	1 cut(s)	189
Psp124BI	GAGCTC	2 cut(s)	165, 174
Psp6I	CCWGG	1 cut(s)	261
PspGI	CCWGG	1 cut(s)	261
PspN4I	GGNNCC	1 cut(s)	636
PspPI	GGNCC	4 cut(s)	259, 274, 489, 635
PsuI	RGATCY	1 cut(s)	153
RruI	TCGCGA	1 cut(s)	285
RsaI	GTAC	1 cut(s)	558
RsaNI	GTAC	1 cut(s)	557
RseI	CAYNNNNRTG	1 cut(s)	457
SacI	GAGCTC	2 cut(s)	165, 174
SatI	GCNGC	3 cut(s)	234, 341, 521
Sau3AI	GATC	6 cut(s)	56, 132, 153, 321, 468, 732
Sau96I	GGNCC	4 cut(s)	259, 274, 489, 635
SchI	GAGTC	1 cut(s)	119
ScrFI	CCNGG	3 cut(s)	139, 263, 278
SduI	GDGCHC	2 cut(s)	165, 174
SetI	ASST	8 cut(s)	165, 174, 255, 261, 461, 530, 651, 693
SfaNI	GCATC	2 cut(s)	125, 220
SinI	GGWCC	4 cut(s)	259, 274, 489, 635
SmiMI	CAYNNNNRTG	1 cut(s)	457
Sse9I	AATT	4 cut(s)	350, 366, 409, 446
SsiI	CCGC	3 cut(s)	17, 101, 234
SstI	GAGCTC	2 cut(s)	165, 174
StyD4I	CCNGG	3 cut(s)	137, 261, 276
StyI	CCWWGG	3 cut(s)	246, 485, 691
TaaI	ACNGT	3 cut(s)	149, 208, 679
TaqI	TCGA	6 cut(s)	52, 59, 228, 324, 401, 471
TasI	AATT	4 cut(s)	350, 366, 409, 446
TatI	WGTACW	1 cut(s)	556
TauI	GCSGC	1 cut(s)	236
TfiI	GAWTC	1 cut(s)	329
TscAI	CASTG	1 cut(s)	664
TseFI	GTSAC	1 cut(s)	686
TseI	GCWGC	2 cut(s)	340, 520
Tsp45I	GTSAC	1 cut(s)	686
TspDTI	ATGAA	4 cut(s)	342, 540, 603, 644
TspGWI	ACGGA	1 cut(s)	727
TspRI	CASTG	1 cut(s)	664
VpaK11BI	GGWCC	4 cut(s)	259, 274, 489, 635
XapI	RAATTY	1 cut(s)	409
XceI	RCATGY	1 cut(s)	193
Zsp2I	ATGCAT	1 cut(s)	588

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