Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0010535

Physical Location & Seq

Genomic Coordinates Reverse (-)

59740770 .. 59743420

Gene Structure 2651 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00379320.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 777 bp

ATGCATCAGCAGCATGAAGCTGGTAAGGACCATTGGTCAGGAAGTTTCAATCCTGCTGCCAAGCCCTTTTTGCCTCGACATGAAAACCAACACCCTGTTCCTTCTTCACTACAATCCTTCAAACCAGGCATACAAGATGTTGCAGCACCGCCTTTTCAACCTATGCTATACCAGCCTCACGTTCTTCCTGTTTATGGATATTATAACCAGCCATGCATTAGTGGATACATTAATCCAGTTCAAGGTTTTGTGCACCCAAATCAGCCTCAACCTCGATATTACGCTGCCAATTTCTTTAATCCTATTTTTGGATCTGTGCCGCTTGTTAAACCTCAGTTTTTTGGTCATGATCCATGTTACCAATTAGGTCAGCCCAGTATGGGATCTCATTCTTTGAATTCAGGGGTTCCGTCAGCCTCGTTGAGGGATAAAATTGTGAAGCAAATAGAATACTATTTCAGTGATGAGAATCTCCCACATGACCATTATCTAATTTCGTTGATGGATGACCAAGGGTGGGTTCCAATATCAACTGTTGCCAAGTTTAAAAGGCCAGCTATACTGGAAACCTCAATTAAAGCAGTCTTCCACCTGTCTACTTTATTCGGACGAACTATTGACCATGTTCTTCGACAGCCTTTGAAAACCTTCCATTCTTGTTCCGGACATCAGATGGTTGCACTTGGTAGAATATTGGTAAGAGCACTTTCCCCATATCTGGTCTGCAATGGAGAAATCTTCACCAGCTCATCCAAGCACCATGTTGAAGAAGCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000932 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005844 GO:0006139 GO:0006401 GO:0006402 GO:0006725 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009266 GO:0009408 GO:0009628 GO:0009892 GO:0009987 GO:0010286 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0019222 GO:0019439 GO:0032991 GO:0034641 GO:0034655 GO:0035770 GO:0036464 GO:0043170 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044237 GO:0044238 GO:0044248 GO:0044260 GO:0044265 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0046700 GO:0048519 GO:0050789 GO:0050896 GO:0060255 GO:0065007 GO:0071704 GO:0090304 GO:1901360 GO:1901361 GO:1901575 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

258

Amino Acids

29.02

Weight (kDa)

8.31

Isoelectric Point (pI)

47.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
La	PF05383	145 - 195	5.6e-20	La domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010535)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g02470 FvH4_4g29920 FvH4_4g29960
malus_domestica	MD11G1176000.v1.1
prunus_persica	Prupe.3G218300_v2.0.a1
pyrus_communis	pycom17g09190
rosa_laevigata	RLG00000006380 RLG00000031169
rosa_multiflora	Rmu_sc0002682.1_g000003
rosa_roxburghii	Rroxscaffold_5G00379320
rosa_rugosa	Rorug04G0406200
rosa_samantha	Rh4BG370000 Rh4CG384100 Rh4DG364900 Rh5AG033300 Rh5BG031700 Rh5CG036000 Rh5DG032300
rosa_wichuraiana	Rw0G006370 Rw0G016310 Rw5G003070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	204
AccI	GTMKAC	1 cut(s)	596
AccIII	TCCGGA	1 cut(s)	662
AciI	CCGC	2 cut(s)	149, 320
AclWI	GGATC	3 cut(s)	319, 344, 391
AcsI	RAATTY	1 cut(s)	397
AfiI	CCNNNNNNNGG	7 cut(s)	194, 242, 308, 380, 423, 517, 718
AgsI	TTSAA	7 cut(s)	49, 121, 158, 242, 397, 643, 767
AhdI	GACNNNNNGTC	1 cut(s)	34
AjnI	CCWGG	1 cut(s)	124
AjuI	GAANNNNNNNTTGG	4 cut(s)	81, 113, 504, 536
AluBI	AGCT	3 cut(s)	20, 557, 747
AluI	AGCT	3 cut(s)	20, 557, 747
Alw21I	GWGCWC	2 cut(s)	255, 706
Alw44I	GTGCAC	1 cut(s)	251
AlwI	GGATC	3 cut(s)	319, 344, 391
Aor13HI	TCCGGA	1 cut(s)	662
AoxI	GGCC	1 cut(s)	551
ApaLI	GTGCAC	1 cut(s)	251
ApeKI	GCWGC	4 cut(s)	10, 56, 143, 284
ApoI	RAATTY	1 cut(s)	397
AseI	ATTAAT	1 cut(s)	231
Asp700I	GAANNNNTTC	1 cut(s)	647
AspS9I	GGNCC	1 cut(s)	28
AsuHPI	GGTGA	1 cut(s)	733
AvaII	GGWCC	1 cut(s)	28
BaeGI	GKGCMC	1 cut(s)	255
BbsI	GAAGAC	1 cut(s)	577
Bbv12I	GWGCWC	2 cut(s)	255, 706
BbvI	GCAGC	4 cut(s)	22, 43, 155, 271
BccI	CCATC	2 cut(s)	496, 667
BciT130I	CCWGG	1 cut(s)	126
BciVI	GTATCC	1 cut(s)	218
BfuI	GTATCC	1 cut(s)	218
BisI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
BlsI	GCNGC	5 cut(s)	12, 58, 145, 286, 321
Bme1390I	CCNGG	1 cut(s)	126
Bme18I	GGWCC	1 cut(s)	28
BmeRI	GACNNNNNGTC	1 cut(s)	34
BmgT120I	GGNCC	1 cut(s)	28
BmiI	GGNNCC	2 cut(s)	408, 522
BmrFI	CCNGG	1 cut(s)	126
BmrI	ACTGGG	1 cut(s)	369
BmsI	GCATC	1 cut(s)	13
BmuI	ACTGGG	1 cut(s)	369
BpiI	GAAGAC	1 cut(s)	577
BsaBI	GATNNNNATC	1 cut(s)	468
BsaJI	CCNNGG	1 cut(s)	511
BsaWI	WCCGGW	1 cut(s)	662
Bsc4I	CCNNNNNNNGG	7 cut(s)	194, 242, 308, 380, 423, 517, 718
Bse1I	ACTGG	3 cut(s)	236, 375, 567
Bse3DI	GCAATG	1 cut(s)	733
Bse8I	GATNNNNATC	1 cut(s)	468
BseAI	TCCGGA	1 cut(s)	662
BseBI	CCWGG	1 cut(s)	126
BseDI	CCNNGG	1 cut(s)	511
BseGI	GGATG	2 cut(s)	511, 749
BseJI	GATNNNNATC	1 cut(s)	468
BseLI	CCNNNNNNNGG	7 cut(s)	194, 242, 308, 380, 423, 517, 718
BseMI	GCAATG	1 cut(s)	733
BseMII	CTCAG	1 cut(s)	347
BseNI	ACTGG	3 cut(s)	236, 375, 567
BseSI	GKGCMC	1 cut(s)	255
BseXI	GCAGC	4 cut(s)	22, 43, 155, 271
BshFI	GGCC	1 cut(s)	553
BsiHKAI	GWGCWC	2 cut(s)	255, 706
BsiSI	CCGG	1 cut(s)	663
BslI	CCNNNNNNNGG	7 cut(s)	194, 242, 308, 380, 423, 517, 718
BsnI	GGCC	1 cut(s)	553
Bsp1286I	GDGCHC	2 cut(s)	255, 706
Bsp13I	TCCGGA	1 cut(s)	662
Bsp143I	GATC	3 cut(s)	311, 349, 383
BspACI	CCGC	2 cut(s)	149, 320
BspANI	GGCC	1 cut(s)	553
BspCNI	CTCAG	1 cut(s)	346
BspEI	TCCGGA	1 cut(s)	662
BspHI	TCATGA	1 cut(s)	346
BspLI	GGNNCC	2 cut(s)	408, 522
BspPI	GGATC	3 cut(s)	319, 344, 391
BsrDI	GCAATG	1 cut(s)	733
BsrI	ACTGG	3 cut(s)	236, 375, 567
BssECI	CCNNGG	1 cut(s)	511
BssMI	GATC	3 cut(s)	311, 349, 383
BssT1I	CCWWGG	1 cut(s)	511
Bst2UI	CCWGG	1 cut(s)	126
Bst4CI	ACNGT	1 cut(s)	535
BstC8I	GCNNGC	1 cut(s)	555
BstDEI	CTNAG	1 cut(s)	333
BstENI	CCTNNNNNAGG	1 cut(s)	421
BstF5I	GGATG	2 cut(s)	511, 749
BstKTI	GATC	3 cut(s)	314, 352, 386
BstMBI	GATC	3 cut(s)	311, 349, 383
BstMWI	GCNNNNNNNGC	3 cut(s)	10, 70, 172
BstNI	CCWGG	1 cut(s)	126
BstSCI	CCNGG	1 cut(s)	124
BstSLI	GKGCMC	1 cut(s)	255
BstV1I	GCAGC	4 cut(s)	22, 43, 155, 271
BstV2I	GAAGAC	1 cut(s)	577
BstX2I	RGATCY	2 cut(s)	311, 383
BstYI	RGATCY	2 cut(s)	311, 383
BsuI	GTATCC	1 cut(s)	218
BsuRI	GGCC	1 cut(s)	553
BtsCI	GGATG	2 cut(s)	511, 749
BtsIMutI	CAGTG	1 cut(s)	466
Cac8I	GCNNGC	1 cut(s)	555
CciI	TCATGA	1 cut(s)	346
Cfr13I	GGNCC	1 cut(s)	28
CviAII	CATG	8 cut(s)	14, 80, 213, 347, 354, 479, 623, 761
DdeI	CTNAG	1 cut(s)	333
DpnI	GATC	3 cut(s)	313, 351, 385
DpnII	GATC	3 cut(s)	311, 349, 383
DraI	TTTAAA	1 cut(s)	547
DriI	GACNNNNNGTC	1 cut(s)	34
Eam1105I	GACNNNNNGTC	1 cut(s)	34
Eco130I	CCWWGG	1 cut(s)	511
Eco47I	GGWCC	1 cut(s)	28
EcoNI	CCTNNNNNAGG	1 cut(s)	421
EcoRI	GAATTC	1 cut(s)	397
EcoRII	CCWGG	1 cut(s)	124
EcoT14I	CCWWGG	1 cut(s)	511
EcoT22I	ATGCAT	2 cut(s)	6, 218
ErhI	CCWWGG	1 cut(s)	511
FaeI	CATG	8 cut(s)	17, 83, 216, 350, 357, 482, 626, 764
FatI	CATG	8 cut(s)	13, 79, 212, 346, 353, 478, 622, 760
FblI	GTMKAC	1 cut(s)	596
Fnu4HI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
FokI	GGATG	2 cut(s)	518, 736
Fsp4HI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
GluI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
HaeIII	GGCC	1 cut(s)	553
HapII	CCGG	1 cut(s)	663
Hin1II	CATG	8 cut(s)	17, 83, 216, 350, 357, 482, 626, 764
HinfI	GANTC	1 cut(s)	469
HpaII	CCGG	1 cut(s)	663
HphI	GGTGA	1 cut(s)	733
Hpy166II	GTNNAC	2 cut(s)	253, 597
Hpy188I	TCNGA	2 cut(s)	608, 672
Hpy188III	TCNNGA	3 cut(s)	39, 347, 663
Hpy8I	GTNNAC	2 cut(s)	253, 597
HpyAV	CCTTC	3 cut(s)	111, 127, 658
HpyCH4III	ACNGT	1 cut(s)	535
HpyCH4IV	ACGT	1 cut(s)	180
HpyCH4V	TGCA	6 cut(s)	4, 143, 216, 253, 680, 726
HpyF10VI	GCNNNNNNNGC	3 cut(s)	10, 70, 172
HpyF3I	CTNAG	1 cut(s)	333
HpySE526I	ACGT	1 cut(s)	180
Hsp92II	CATG	8 cut(s)	17, 83, 216, 350, 357, 482, 626, 764
Kpn2I	TCCGGA	1 cut(s)	662
Kzo9I	GATC	3 cut(s)	311, 349, 383
Lsp1109I	GCAGC	4 cut(s)	22, 43, 155, 271
LweI	GCATC	1 cut(s)	13
MaeII	ACGT	1 cut(s)	180
MaeIII	GTNAC	1 cut(s)	356
MalI	GATC	3 cut(s)	313, 351, 385
MboI	GATC	3 cut(s)	311, 349, 383
MboII	GAAGA	5 cut(s)	96, 176, 577, 620, 730
MflI	RGATCY	2 cut(s)	311, 383
MhlI	GDGCHC	2 cut(s)	255, 706
MluCI	AATT	6 cut(s)	289, 362, 397, 432, 492, 573
MnlI	CCTC	8 cut(s)	84, 186, 276, 282, 342, 417, 427, 580
Mph1103I	ATGCAT	2 cut(s)	6, 218
MroI	TCCGGA	1 cut(s)	662
MroXI	GAANNNNTTC	1 cut(s)	647
MseI	TTAA	5 cut(s)	231, 297, 327, 546, 576
MspI	CCGG	1 cut(s)	663
MspR9I	CCNGG	1 cut(s)	126
MvaI	CCWGG	1 cut(s)	126
MwoI	GCNNNNNNNGC	3 cut(s)	10, 70, 172
NdeII	GATC	3 cut(s)	311, 349, 383
NlaIII	CATG	8 cut(s)	17, 83, 216, 350, 357, 482, 626, 764
NlaIV	GGNNCC	2 cut(s)	408, 522
NsiI	ATGCAT	2 cut(s)	6, 218
PagI	TCATGA	1 cut(s)	346
PdmI	GAANNNNTTC	1 cut(s)	647
PfeI	GAWTC	1 cut(s)	469
PkrI	GCNGC	5 cut(s)	12, 58, 145, 286, 321
PshBI	ATTAAT	1 cut(s)	231
PsiI	TTATAA	1 cut(s)	204
Psp6I	CCWGG	1 cut(s)	124
PspGI	CCWGG	1 cut(s)	124
PspN4I	GGNNCC	2 cut(s)	408, 522
PspPI	GGNCC	1 cut(s)	28
PsuI	RGATCY	2 cut(s)	311, 383
SaqAI	TTAA	5 cut(s)	231, 297, 327, 546, 576
SatI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
Sau3AI	GATC	3 cut(s)	311, 349, 383
Sau96I	GGNCC	1 cut(s)	28
ScrFI	CCNGG	1 cut(s)	126
SduI	GDGCHC	2 cut(s)	255, 706
SfaNI	GCATC	1 cut(s)	13
SinI	GGWCC	1 cut(s)	28
Sse9I	AATT	6 cut(s)	289, 362, 397, 432, 492, 573
SsiI	CCGC	2 cut(s)	149, 320
SspI	AATATT	1 cut(s)	693
StyD4I	CCNGG	1 cut(s)	124
StyI	CCWWGG	1 cut(s)	511
TaaI	ACNGT	1 cut(s)	535
TaiI	ACGT	1 cut(s)	183
TaqI	TCGA	3 cut(s)	76, 274, 631
TasI	AATT	6 cut(s)	289, 362, 397, 432, 492, 573
TauI	GCSGC	1 cut(s)	322
TfiI	GAWTC	1 cut(s)	469
Tru1I	TTAA	5 cut(s)	231, 297, 327, 546, 576
Tru9I	TTAA	5 cut(s)	231, 297, 327, 546, 576
TscAI	CASTG	1 cut(s)	466
TseI	GCWGC	4 cut(s)	10, 56, 143, 284
TspDTI	ATGAA	2 cut(s)	30, 96
TspGWI	ACGGA	1 cut(s)	399
TspRI	CASTG	1 cut(s)	466
VneI	GTGCAC	1 cut(s)	251
VpaK11BI	GGWCC	1 cut(s)	28
VspI	ATTAAT	1 cut(s)	231
XagI	CCTNNNNNAGG	1 cut(s)	421
XapI	RAATTY	1 cut(s)	397
XmiI	GTMKAC	1 cut(s)	596
XmnI	GAANNNNTTC	1 cut(s)	647
Zsp2I	ATGCAT	2 cut(s)	6, 218

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