Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0001324

Physical Location & Seq

Genomic Coordinates Forward (+)

9938514 .. 9940070

Gene Structure 1557 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0111400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGCCAGTAACAACAGCAGCTCTGCAGTCTTCTCTATGCTTCTCTCCTCATAACCCATCATCATCATCATCATCATCTTCATCTTCTATTCCCTCCAATTTGCAGACCTCAAACACCACCACCCATTTGGCAGCAAAACCCCAAAGCATTCTCCAAAAGCACCCACTATACACCCCCACCCACACCAAACTCTCCCTCCAATTCAAAGAGAAAATCCTCTGCCTTGAAATCATGGGAGTTGATGCAGGCAAAGCACTCTCCCAAAACCCTAATCTCCACTCAGCAACTCTCGACTCAATCCAAGCCATAATCACCTTCCTTCAATCCAAAGGCATACAAGAGAAGGACTTGGCCAAGATCTTTGGGATGTGCCCCCATATCCTCACCTCCAACATCAAAAGTGAGCTCACCCCAGTTTTCGACTTTCTCTCAGATTACCTCCAAGTCCCAGAACATAACTTCAGAAAGGTCATCAACAAATGCCCAAGATTGCTTGCTTCAAGTGTGAGTGACCAGCTCAAACCAGCTTTGTTTTATCTTCAGAGACTTGGGTTCAAGGACTTGCATGCCTTAGCTTACCATGACTCTGTGCTCTTGGTTTCAAGTGTGGAGAAGACCCTGATTCCCAAGTTAAATTTTTTGGTGGGTTTGGGAATTCCAAGAGATGAGGCTGTGGCGTTGGTGCTGAGGTGTCCAGCATTGCTCACTTTCAGTATTGAGAATAACTACAAGCCAAAGTATGAGTACTTCTCTGTGGATATGGGGTTGAAATTGGAGGATTTGAAGGAGTTTCCTCAGTACTTTGCGTTTAGTTTGGAGAAGAGGATAAAGCCAAGGCATATGGAGGTTGTGCAAAGTGGAGTACACGTGCCTTTGCCACTTATGCTCAAGAGCACGGATGAGGAGTTCAGGGAGTTGCTGAAGCAATTTGGGGGTGGATGA

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

313

Amino Acids

34.89

Weight (kDa)

8.67

Isoelectric Point (pI)

50.83

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
mTERF	PF02536	72 - 186	1.5e-12	mTERF
mTERF	PF02536	198 - 303	8.1e-26	mTERF

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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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)
AcoI	YGGCCR	1 cut(s)	351
AcsI	RAATTY	2 cut(s)	634, 654
AcuI	CTGAAG	3 cut(s)	445, 524, 941
AcvI	CACGTG	1 cut(s)	868
AfaI	GTAC	3 cut(s)	746, 800, 864
AflIII	ACRYGT	1 cut(s)	865
AgsI	TTSAA	8 cut(s)	205, 227, 323, 501, 556, 603, 769, 784
AloI	GAACNNNNNNTCC	2 cut(s)	890, 922
AluBI	AGCT	5 cut(s)	20, 406, 517, 527, 575
AluI	AGCT	5 cut(s)	20, 406, 517, 527, 575
Alw21I	GWGCWC	3 cut(s)	408, 594, 896
Alw26I	GTCTC	1 cut(s)	538
AoxI	GGCC	1 cut(s)	351
ApeKI	GCWGC	2 cut(s)	17, 131
ApoI	RAATTY	2 cut(s)	634, 654
AsuHPI	GGTGA	3 cut(s)	304, 376, 400
BaeGI	GKGCMC	1 cut(s)	374
BalI	TGGCCA	1 cut(s)	353
BanII	GRGCYC	1 cut(s)	408
BarI	GAAGNNNNNNTAC	2 cut(s)	731, 763
BbrPI	CACGTG	1 cut(s)	868
BbsI	GAAGAC	2 cut(s)	21, 620
Bbv12I	GWGCWC	3 cut(s)	408, 594, 896
BbvCI	CCTCAGC	1 cut(s)	686
BbvI	GCAGC	2 cut(s)	29, 143
BccI	CCATC	1 cut(s)	64
BcoDI	GTCTC	1 cut(s)	538
BfmI	CTRYAG	1 cut(s)	23
BglII	AGATCT	1 cut(s)	357
BisI	GCNGC	2 cut(s)	18, 132
BlsI	GCNGC	2 cut(s)	19, 133
BmcAI	AGTACT	2 cut(s)	746, 800
BmrI	ACTGGG	1 cut(s)	407
BmsI	GCATC	1 cut(s)	232
BmuI	ACTGGG	1 cut(s)	407
BpiI	GAAGAC	2 cut(s)	21, 620
BplI	GAGNNNNNCTC	2 cut(s)	734, 766
Bpu10I	CCTNAGC	2 cut(s)	571, 686
BpuEI	CTTGAG	1 cut(s)	872
BsaAI	YACGTR	1 cut(s)	868
BsaJI	CCNNGG	1 cut(s)	833
BsaXI	ACNNNNNCTCC	4 cut(s)	180, 210, 852, 882
Bse1I	ACTGG	2 cut(s)	5, 413
Bse3DI	GCAATG	1 cut(s)	698
BseDI	CCNNGG	1 cut(s)	833
BseGI	GGATG	2 cut(s)	372, 904
BseMI	GCAATG	1 cut(s)	698
BseMII	CTCAG	4 cut(s)	294, 444, 677, 809
BseNI	ACTGG	2 cut(s)	5, 413
BseRI	GAGGAG	2 cut(s)	36, 917
BseSI	GKGCMC	1 cut(s)	374
BseXI	GCAGC	2 cut(s)	29, 143
BshFI	GGCC	1 cut(s)	353
BsiHKAI	GWGCWC	3 cut(s)	408, 594, 896
BslFI	GGGAC	1 cut(s)	431
BsmAI	GTCTC	1 cut(s)	538
BsmFI	GGGAC	1 cut(s)	431
BsmI	GAATGC	1 cut(s)	147
BsnI	GGCC	1 cut(s)	353
Bsp1286I	GDGCHC	4 cut(s)	374, 408, 594, 896
Bsp143I	GATC	1 cut(s)	357
BspANI	GGCC	1 cut(s)	353
BspCNI	CTCAG	4 cut(s)	293, 443, 678, 808
BspMAI	CTGCAG	1 cut(s)	27
BsrDI	GCAATG	1 cut(s)	698
BsrI	ACTGG	2 cut(s)	5, 413
BssECI	CCNNGG	1 cut(s)	833
BssMI	GATC	1 cut(s)	357
BssT1I	CCWWGG	1 cut(s)	833
Bst6I	CTCTTC	1 cut(s)	815
BstBAI	YACGTR	1 cut(s)	868
BstC8I	GCNNGC	3 cut(s)	247, 495, 567
BstDEI	CTNAG	5 cut(s)	280, 430, 571, 686, 795
BstF5I	GGATG	2 cut(s)	372, 904
BstKTI	GATC	1 cut(s)	360
BstMAI	GTCTC	1 cut(s)	538
BstMBI	GATC	1 cut(s)	357
BstMWI	GCNNNNNNNGC	2 cut(s)	251, 883
BstNSI	RCATGY	1 cut(s)	569
BstSFI	CTRYAG	1 cut(s)	23
BstSLI	GKGCMC	1 cut(s)	374
BstV1I	GCAGC	2 cut(s)	29, 143
BstV2I	GAAGAC	2 cut(s)	21, 620
BstX2I	RGATCY	1 cut(s)	357
BstXI	CCANNNNNNTGG	1 cut(s)	127
BstYI	RGATCY	1 cut(s)	357
BsuRI	GGCC	1 cut(s)	353
BtsCI	GGATG	2 cut(s)	372, 904
Cac8I	GCNNGC	3 cut(s)	247, 495, 567
Csp6I	GTAC	3 cut(s)	745, 799, 863
CviAII	CATG	3 cut(s)	232, 566, 581
CviQI	GTAC	3 cut(s)	745, 799, 863
DdeI	CTNAG	5 cut(s)	280, 430, 571, 686, 795
DpnI	GATC	1 cut(s)	359
DpnII	GATC	1 cut(s)	357
EaeI	YGGCCR	1 cut(s)	351
Eam1104I	CTCTTC	1 cut(s)	815
EarI	CTCTTC	1 cut(s)	815
Ecl136II	GAGCTC	1 cut(s)	406
Eco130I	CCWWGG	1 cut(s)	833
Eco24I	GRGCYC	1 cut(s)	408
Eco53kI	GAGCTC	1 cut(s)	406
Eco57I	CTGAAG	3 cut(s)	445, 524, 941
Eco72I	CACGTG	1 cut(s)	868
EcoICRI	GAGCTC	1 cut(s)	406
EcoRI	GAATTC	1 cut(s)	654
EcoT14I	CCWWGG	1 cut(s)	833
EcoT38I	GRGCYC	1 cut(s)	408
ErhI	CCWWGG	1 cut(s)	833
FaeI	CATG	3 cut(s)	235, 569, 584
FaqI	GGGAC	1 cut(s)	431
FatI	CATG	3 cut(s)	231, 565, 580
FauNDI	CATATG	1 cut(s)	840
Fnu4HI	GCNGC	2 cut(s)	18, 132
FokI	GGATG	2 cut(s)	379, 911
FriOI	GRGCYC	1 cut(s)	408
Fsp4HI	GCNGC	2 cut(s)	18, 132
GluI	GCNGC	2 cut(s)	18, 132
HaeIII	GGCC	1 cut(s)	353
Hin1II	CATG	3 cut(s)	235, 569, 584
HinfI	GANTC	3 cut(s)	293, 584, 622
HphI	GGTGA	3 cut(s)	304, 376, 400
Hpy166II	GTNNAC	1 cut(s)	865
Hpy188I	TCNGA	3 cut(s)	433, 464, 543
Hpy188III	TCNNGA	2 cut(s)	290, 889
Hpy8I	GTNNAC	1 cut(s)	865
HpyAV	CCTTC	4 cut(s)	325, 329, 337, 778
HpyCH4IV	ACGT	1 cut(s)	867
HpyCH4V	TGCA	5 cut(s)	25, 103, 245, 565, 853
HpyF10VI	GCNNNNNNNGC	2 cut(s)	251, 883
HpyF3I	CTNAG	5 cut(s)	280, 430, 571, 686, 795
HpySE526I	ACGT	1 cut(s)	867
Hsp92II	CATG	3 cut(s)	235, 569, 584
Kzo9I	GATC	1 cut(s)	357
LpnPI	CCDG	9 cut(s)	18, 231, 426, 462, 527, 537, 632, 708, 895
Lsp1109I	GCAGC	2 cut(s)	29, 143
LweI	GCATC	1 cut(s)	232
MaeII	ACGT	1 cut(s)	867
MaeIII	GTNAC	2 cut(s)	7, 509
MalI	GATC	1 cut(s)	359
MboI	GATC	1 cut(s)	357
MboII	GAAGA	6 cut(s)	21, 69, 75, 530, 625, 832
MflI	RGATCY	1 cut(s)	357
MhlI	GDGCHC	4 cut(s)	374, 408, 594, 896
MlsI	TGGCCA	1 cut(s)	353
MluCI	AATT	6 cut(s)	97, 200, 634, 654, 770, 926
MluNI	TGGCCA	1 cut(s)	353
MlyI	GAGTC	2 cut(s)	287, 578
MmeI	TCCRAC	1 cut(s)	414
Mox20I	TGGCCA	1 cut(s)	353
MscI	TGGCCA	1 cut(s)	353
MseI	TTAA	1 cut(s)	632
Msp20I	TGGCCA	1 cut(s)	353
Mva1269I	GAATGC	1 cut(s)	147
MwoI	GCNNNNNNNGC	2 cut(s)	251, 883
NdeI	CATATG	1 cut(s)	840
NdeII	GATC	1 cut(s)	357
NlaIII	CATG	3 cut(s)	235, 569, 584
NmuCI	GTSAC	1 cut(s)	509
NspI	RCATGY	1 cut(s)	569
PaeI	GCATGC	1 cut(s)	569
PctI	GAATGC	1 cut(s)	147
PfeI	GAWTC	1 cut(s)	622
PkrI	GCNGC	2 cut(s)	19, 133
PleI	GAGTC	2 cut(s)	287, 578
PmaCI	CACGTG	1 cut(s)	868
PmlI	CACGTG	1 cut(s)	868
PpsI	GAGTC	2 cut(s)	287, 578
Ppu21I	YACGTR	1 cut(s)	868
Psp124BI	GAGCTC	1 cut(s)	408
PspCI	CACGTG	1 cut(s)	868
PstI	CTGCAG	1 cut(s)	27
PsuI	RGATCY	1 cut(s)	357
RsaI	GTAC	3 cut(s)	746, 800, 864
RsaNI	GTAC	3 cut(s)	745, 799, 863
SacI	GAGCTC	1 cut(s)	408
SaqAI	TTAA	1 cut(s)	632
SatI	GCNGC	2 cut(s)	18, 132
Sau3AI	GATC	1 cut(s)	357
ScaI	AGTACT	2 cut(s)	746, 800
SchI	GAGTC	2 cut(s)	287, 578
SduI	GDGCHC	4 cut(s)	374, 408, 594, 896
SfaNI	GCATC	1 cut(s)	232
SfcI	CTRYAG	1 cut(s)	23
SmlI	CTYRAG	1 cut(s)	887
SmoI	CTYRAG	1 cut(s)	887
SphI	GCATGC	1 cut(s)	569
Sse9I	AATT	6 cut(s)	97, 200, 634, 654, 770, 926
SstI	GAGCTC	1 cut(s)	408
StyI	CCWWGG	1 cut(s)	833
TaiI	ACGT	1 cut(s)	870
TaqI	TCGA	2 cut(s)	291, 420
TasI	AATT	6 cut(s)	97, 200, 634, 654, 770, 926
TatI	WGTACW	3 cut(s)	744, 798, 862
TfiI	GAWTC	1 cut(s)	622
Tru1I	TTAA	1 cut(s)	632
Tru9I	TTAA	1 cut(s)	632
TseFI	GTSAC	1 cut(s)	509
TseI	GCWGC	2 cut(s)	17, 131
Tsp45I	GTSAC	1 cut(s)	509
TspDTI	ATGAA	1 cut(s)	69
TspGWI	ACGGA	1 cut(s)	911
XapI	RAATTY	2 cut(s)	634, 654
XceI	RCATGY	1 cut(s)	569
XcmI	CCANNNNNNNNNTGG	1 cut(s)	124
ZrmI	AGTACT	2 cut(s)	746, 800

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