Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0010535

Physical Location & Seq

Genomic Coordinates Reverse (-)

63693959 .. 63694630

Gene Structure 672 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG384100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 672 bp

ATGCATCAGCAGCATGTAGCTGGTAAGGACCATAGGTCAGGAAGTCTCAATCCTGCTGCCAAGCCCTTTTTGCCTCTACATGAAAACCAACACCCTGTTCCTTCTTCACTACAATCCTTCAAACCAGGCATACAAGATGTTGCAGCACCGCCTTTTCAACCTATGTTATACCAGCCTCATGTTCTTCCTGTTTATGGATATTATAACCAGCCATGCATTAGTGGATACATTAATCCAGTTCAAGGTTTTGTGCACCCAAATCAGCCTCAACCTCGATATTACGCTGCCAATTTCTTTAATCCTATTTTTGGATCTGTGCCGCTTGTTAAACCTCAGTTTTTTGGTCATGATCCATGTTACCAATTAGGTCAGCCTAGTATGGGATCTCATTCTTTGAATTCAGGGGTTCCGTCAGCCTCGTTGAGGGATAAAATTGTGAAGCAAATAGAATACTATTTCAGTGATGAGAATCTCCCACATGACCATTATCTAATTTCGTTGATGGATGACCAAGGGTGGGTTCCAATATCAACTGTTGCCAAGTTTAAAAGGGTTGAGAGAATGTGTACGGATATACCATTTATTCTTGACTCACTGTCGTCGTTTGGTTCAAGTGTTGTAGAAGTGCAGGGTAACAAGTTAAGAAGACGTCGTGATGAGTGGTCAAATTGA

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

223

Amino Acids

25.22

Weight (kDa)

7.8

Isoelectric Point (pI)

56.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
La	PF05383	145 - 200	7.9e-24	La domain

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: 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
AatII	GACGTC	1 cut(s)	652
AciI	CCGC	2 cut(s)	149, 320
AclWI	GGATC	3 cut(s)	319, 344, 391
AcsI	RAATTY	1 cut(s)	397
AcyI	GRCGYC	1 cut(s)	649
AfaI	GTAC	1 cut(s)	568
AfiI	CCNNNNNNNGG	6 cut(s)	194, 242, 308, 380, 423, 517
AgsI	TTSAA	5 cut(s)	121, 158, 242, 397, 612
AhdI	GACNNNNNGTC	2 cut(s)	34, 595
AjnI	CCWGG	1 cut(s)	124
AjuI	GAANNNNNNNTTGG	4 cut(s)	81, 113, 504, 536
AluBI	AGCT	1 cut(s)	20
AluI	AGCT	1 cut(s)	20
Alw21I	GWGCWC	1 cut(s)	255
Alw26I	GTCTC	1 cut(s)	50
Alw44I	GTGCAC	1 cut(s)	251
AlwI	GGATC	3 cut(s)	319, 344, 391
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
AspS9I	GGNCC	1 cut(s)	28
AvaII	GGWCC	1 cut(s)	28
BaeGI	GKGCMC	1 cut(s)	255
BbsI	GAAGAC	1 cut(s)	652
Bbv12I	GWGCWC	1 cut(s)	255
BbvI	GCAGC	4 cut(s)	22, 43, 155, 271
BccI	CCATC	1 cut(s)	496
BciT130I	CCWGG	1 cut(s)	126
BciVI	GTATCC	1 cut(s)	218
BcoDI	GTCTC	1 cut(s)	50
BfaI	CTAG	1 cut(s)	375
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	2 cut(s)	34, 595
BmgT120I	GGNCC	1 cut(s)	28
BmiI	GGNNCC	2 cut(s)	408, 522
BmrFI	CCNGG	1 cut(s)	126
BmsI	GCATC	1 cut(s)	13
BpiI	GAAGAC	1 cut(s)	652
BsaBI	GATNNNNATC	1 cut(s)	468
BsaHI	GRCGYC	1 cut(s)	649
BsaJI	CCNNGG	1 cut(s)	511
Bsc4I	CCNNNNNNNGG	6 cut(s)	194, 242, 308, 380, 423, 517
Bse1I	ACTGG	1 cut(s)	236
Bse8I	GATNNNNATC	1 cut(s)	468
BseBI	CCWGG	1 cut(s)	126
BseDI	CCNNGG	1 cut(s)	511
BseGI	GGATG	1 cut(s)	511
BseJI	GATNNNNATC	1 cut(s)	468
BseLI	CCNNNNNNNGG	6 cut(s)	194, 242, 308, 380, 423, 517
BseMII	CTCAG	1 cut(s)	347
BseNI	ACTGG	1 cut(s)	236
BseSI	GKGCMC	1 cut(s)	255
BseXI	GCAGC	4 cut(s)	22, 43, 155, 271
BsgI	GTGCAG	1 cut(s)	647
BsiHKAI	GWGCWC	1 cut(s)	255
BslI	CCNNNNNNNGG	6 cut(s)	194, 242, 308, 380, 423, 517
BsmAI	GTCTC	1 cut(s)	50
Bsp1286I	GDGCHC	1 cut(s)	255
Bsp143I	GATC	3 cut(s)	311, 349, 383
BspACI	CCGC	2 cut(s)	149, 320
BspCNI	CTCAG	1 cut(s)	346
BspHI	TCATGA	1 cut(s)	346
BspLI	GGNNCC	2 cut(s)	408, 522
BspPI	GGATC	3 cut(s)	319, 344, 391
BsrI	ACTGG	1 cut(s)	236
BssECI	CCNNGG	1 cut(s)	511
BssMI	GATC	3 cut(s)	311, 349, 383
BssNI	GRCGYC	1 cut(s)	649
BssT1I	CCWWGG	1 cut(s)	511
Bst2UI	CCWGG	1 cut(s)	126
Bst4CI	ACNGT	2 cut(s)	535, 597
BstACI	GRCGYC	1 cut(s)	649
BstDEI	CTNAG	1 cut(s)	333
BstENI	CCTNNNNNAGG	1 cut(s)	421
BstF5I	GGATG	1 cut(s)	511
BstKTI	GATC	3 cut(s)	314, 352, 386
BstMAI	GTCTC	1 cut(s)	50
BstMBI	GATC	3 cut(s)	311, 349, 383
BstMWI	GCNNNNNNNGC	2 cut(s)	10, 70
BstNI	CCWGG	1 cut(s)	126
BstNSI	RCATGY	1 cut(s)	17
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)	652
BstX2I	RGATCY	2 cut(s)	311, 383
BstYI	RGATCY	2 cut(s)	311, 383
BsuI	GTATCC	1 cut(s)	218
BtsCI	GGATG	1 cut(s)	511
BtsIMutI	CAGTG	2 cut(s)	466, 593
CciI	TCATGA	1 cut(s)	346
Cfr13I	GGNCC	1 cut(s)	28
Csp6I	GTAC	1 cut(s)	567
CviAII	CATG	7 cut(s)	14, 80, 179, 213, 347, 354, 479
CviJI	RGCY	7 cut(s)	20, 64, 175, 211, 265, 373, 416
CviKI_1	RGCY	7 cut(s)	20, 64, 175, 211, 265, 373, 416
CviQI	GTAC	1 cut(s)	567
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	2 cut(s)	34, 595
Eam1105I	GACNNNNNGTC	2 cut(s)	34, 595
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	7 cut(s)	17, 83, 182, 216, 350, 357, 482
FatI	CATG	7 cut(s)	13, 79, 178, 212, 346, 353, 478
Fnu4HI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
FokI	GGATG	1 cut(s)	518
Fsp4HI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
FspBI	CTAG	1 cut(s)	375
GluI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
Hin1I	GRCGYC	1 cut(s)	649
Hin1II	CATG	7 cut(s)	17, 83, 182, 216, 350, 357, 482
HinfI	GANTC	2 cut(s)	469, 590
Hpy166II	GTNNAC	2 cut(s)	253, 567
Hpy188III	TCNNGA	4 cut(s)	39, 347, 587, 653
Hpy8I	GTNNAC	2 cut(s)	253, 567
Hpy99I	CGWCG	2 cut(s)	604, 654
HpyAV	CCTTC	2 cut(s)	111, 127
HpyCH4III	ACNGT	2 cut(s)	535, 597
HpyCH4IV	ACGT	1 cut(s)	649
HpyCH4V	TGCA	5 cut(s)	4, 143, 216, 253, 628
HpyF10VI	GCNNNNNNNGC	2 cut(s)	10, 70
HpyF3I	CTNAG	1 cut(s)	333
HpySE526I	ACGT	1 cut(s)	649
Hsp92I	GRCGYC	1 cut(s)	649
Hsp92II	CATG	7 cut(s)	17, 83, 182, 216, 350, 357, 482
Kzo9I	GATC	3 cut(s)	311, 349, 383
Lsp1109I	GCAGC	4 cut(s)	22, 43, 155, 271
LweI	GCATC	1 cut(s)	13
MaeI	CTAG	1 cut(s)	375
MaeII	ACGT	1 cut(s)	649
MaeIII	GTNAC	2 cut(s)	356, 632
MalI	GATC	3 cut(s)	313, 351, 385
MboI	GATC	3 cut(s)	311, 349, 383
MboII	GAAGA	3 cut(s)	96, 176, 657
MflI	RGATCY	2 cut(s)	311, 383
MhlI	GDGCHC	1 cut(s)	255
MluCI	AATT	6 cut(s)	289, 362, 397, 432, 492, 667
MlyI	GAGTC	1 cut(s)	584
MnlI	CCTC	7 cut(s)	84, 186, 276, 282, 342, 417, 427
Mph1103I	ATGCAT	2 cut(s)	6, 218
MseI	TTAA	5 cut(s)	231, 297, 327, 546, 641
MspR9I	CCNGG	1 cut(s)	126
MvaI	CCWGG	1 cut(s)	126
MwoI	GCNNNNNNNGC	2 cut(s)	10, 70
NdeII	GATC	3 cut(s)	311, 349, 383
NlaIII	CATG	7 cut(s)	17, 83, 182, 216, 350, 357, 482
NlaIV	GGNNCC	2 cut(s)	408, 522
NsiI	ATGCAT	2 cut(s)	6, 218
NspI	RCATGY	1 cut(s)	17
PagI	TCATGA	1 cut(s)	346
PfeI	GAWTC	1 cut(s)	469
PkrI	GCNGC	5 cut(s)	12, 58, 145, 286, 321
PleI	GAGTC	1 cut(s)	584
PpsI	GAGTC	1 cut(s)	584
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
RsaI	GTAC	1 cut(s)	568
RsaNI	GTAC	1 cut(s)	567
SaqAI	TTAA	5 cut(s)	231, 297, 327, 546, 641
SatI	GCNGC	5 cut(s)	11, 57, 144, 285, 320
Sau3AI	GATC	3 cut(s)	311, 349, 383
Sau96I	GGNCC	1 cut(s)	28
SchI	GAGTC	1 cut(s)	584
ScrFI	CCNGG	1 cut(s)	126
SduI	GDGCHC	1 cut(s)	255
SetI	ASST	8 cut(s)	22, 38, 163, 247, 274, 334, 370, 652
SfaNI	GCATC	1 cut(s)	13
SinI	GGWCC	1 cut(s)	28
Sse9I	AATT	6 cut(s)	289, 362, 397, 432, 492, 667
SsiI	CCGC	2 cut(s)	149, 320
SspMI	CTAG	1 cut(s)	375
StyD4I	CCNGG	1 cut(s)	124
StyI	CCWWGG	1 cut(s)	511
TaaI	ACNGT	2 cut(s)	535, 597
TaiI	ACGT	1 cut(s)	652
TaqI	TCGA	1 cut(s)	274
TasI	AATT	6 cut(s)	289, 362, 397, 432, 492, 667
TauI	GCSGC	1 cut(s)	322
TfiI	GAWTC	1 cut(s)	469
Tru1I	TTAA	5 cut(s)	231, 297, 327, 546, 641
Tru9I	TTAA	5 cut(s)	231, 297, 327, 546, 641
TscAI	CASTG	2 cut(s)	466, 600
TseI	GCWGC	4 cut(s)	10, 56, 143, 284
TspDTI	ATGAA	1 cut(s)	96
TspGWI	ACGGA	2 cut(s)	399, 584
TspRI	CASTG	2 cut(s)	466, 600
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
XceI	RCATGY	1 cut(s)	17
XspI	CTAG	1 cut(s)	375
ZraI	GACGTC	1 cut(s)	650
Zsp2I	ATGCAT	2 cut(s)	6, 218

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