Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0002551

Physical Location & Seq

Genomic Coordinates Forward (+)

65658577 .. 65659560

Gene Structure 984 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG448000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 495 bp

ATGGCCCAGGCCGTCACCGTCAGGCGCCCAGCGATAGAATACCCAGTCGTCCTCTACTCTCCGCTTCTCCAGTCGTCCTCGGCTCCTCGGTCCTCCTACAGTTCTCTCACTCTCTCAGAGAACAGATTAAGACATCAAGATTCAAGAATCAAGACATCAAATTCTCTTGCTCTAGCCTCTGGAAATTTGTCTGTCGAACTTGATCGGCTTGCACTTTATCTGGATTGTGATATTTGCTTCATCCTCCATGGCATGTTGACAAGCAATGGAAGGATTTGCTTCCATCAGAGTGGGTTCAGGTTTTTTAGATTTGAAGTACAAAGTATTCAAATCTACGACAAAAAAGAATTTGCTGATAGCGGTCAGCCTTTACATGAAGCAGCAGTTAATCTAGATGATGTGACTATCTGTTTGCCACAGGACGGGTATAAGGATGTACTGAAGTTAGCTGATAACTTTGGGTCATTATTGCCCACATATCTCTGTAAACTCTGA

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

Chorein_N PH Pex24p SHR-BD VPS13 VPS13_C VPS13_mid_rpt Vps62

Protein Analysis

164

Amino Acids

18.38

Weight (kDa)

6.4

Isoelectric Point (pI)

52.38

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0002551)

Species	Orthologous Gene IDs
malus_domestica	MD10G1213900.v1.1
rosa_chinensis	RchiOBHm_Chr1g0345651 RchiOBHm_Chr2g0110921 RchiOBHm_Chr4g0407041 RchiOBHm_Chr7g0234401
rosa_laevigata	RLG00000034027
rosa_multiflora	Rmu_sc0001844.1_g000018 Rmu_sc0005996.1_g000031
rosa_roxburghii	Rroxscaffold_2G00118530 Rroxscaffold_2G00118840 Rroxscaffold_3G00254040 Rroxscaffold_4G00311990 Rroxscaffold_4G00315600 Rroxscaffold_4G00325350 Rroxscaffold_5G00352340
rosa_rugosa	Rorug02G0250600 Rorug05G0413900
rosa_samantha	Rh1AG217500 Rh1BG388800 Rh1CG202000 Rh1CG402100 Rh1DG419900 Rh1DG448000 Rh2AG059100 Rh2AG222200 Rh2BG233500 Rh2BG264300 Rh2DG230000 Rh2DG230100 Rh2DG436400 Rh2DG439700 Rh4BG153300 Rh5AG166500 Rh5DG372000 Rh6BG073700 Rh6BG201200 Rh7AG381500 Rh7BG117300 Rh7BG475600 Rh7CG401000 Rh7CG461100

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	24
AciI	CCGC	2 cut(s)	62, 360
AcsI	RAATTY	3 cut(s)	160, 184, 347
AcuI	CTGAAG	1 cut(s)	461
AcyI	GRCGYC	1 cut(s)	25
AfaI	GTAC	2 cut(s)	318, 438
AfiI	CCNNNNNNNGG	1 cut(s)	422
AgsI	TTSAA	3 cut(s)	144, 314, 329
AjnI	CCWGG	1 cut(s)	6
AluBI	AGCT	1 cut(s)	449
AluI	AGCT	1 cut(s)	449
AoxI	GGCC	2 cut(s)	3, 9
ApeKI	GCWGC	1 cut(s)	380
ApoI	RAATTY	3 cut(s)	160, 184, 347
ArsI	GACNNNNNNTTYG	2 cut(s)	394, 426
AspLEI	GCGC	1 cut(s)	27
AspS9I	GGNCC	2 cut(s)	4, 90
AsuHPI	GGTGA	1 cut(s)	7
AvaII	GGWCC	1 cut(s)	90
BanI	GGYRCC	1 cut(s)	24
BbvI	GCAGC	1 cut(s)	392
BccI	CCATC	1 cut(s)	291
BciT130I	CCWGG	1 cut(s)	8
BfaI	CTAG	2 cut(s)	173, 392
BfmI	CTRYAG	1 cut(s)	97
BfoI	RGCGCY	1 cut(s)	28
BisI	GCNGC	1 cut(s)	381
BlsI	GCNGC	1 cut(s)	382
Bme1390I	CCNGG	1 cut(s)	8
Bme18I	GGWCC	1 cut(s)	90
BmgT120I	GGNCC	2 cut(s)	4, 90
BmiI	GGNNCC	2 cut(s)	26, 84
BmrFI	CCNGG	1 cut(s)	8
BmrI	ACTGGG	1 cut(s)	38
BmuI	ACTGGG	1 cut(s)	38
BpmI	CTGGAG	1 cut(s)	53
BsaHI	GRCGYC	1 cut(s)	25
BsaJI	CCNNGG	4 cut(s)	6, 78, 86, 247
Bsc4I	CCNNNNNNNGG	1 cut(s)	422
Bse1I	ACTGG	2 cut(s)	44, 70
Bse3DI	GCAATG	1 cut(s)	271
BseBI	CCWGG	1 cut(s)	8
BseDI	CCNNGG	4 cut(s)	6, 78, 86, 247
BseGI	GGATG	2 cut(s)	240, 439
BseLI	CCNNNNNNNGG	1 cut(s)	422
BseMI	GCAATG	1 cut(s)	271
BseMII	CTCAG	1 cut(s)	129
BseNI	ACTGG	2 cut(s)	44, 70
BseRI	GAGGAG	1 cut(s)	75
BseXI	GCAGC	1 cut(s)	392
BseYI	CCCAGC	1 cut(s)	28
BshFI	GGCC	2 cut(s)	5, 11
BshNI	GGYRCC	1 cut(s)	24
BslI	CCNNNNNNNGG	1 cut(s)	422
BsnI	GGCC	2 cut(s)	5, 11
Bsp143I	GATC	1 cut(s)	202
Bsp19I	CCATGG	1 cut(s)	247
BspACI	CCGC	2 cut(s)	62, 360
BspANI	GGCC	2 cut(s)	5, 11
BspCNI	CTCAG	1 cut(s)	128
BspLI	GGNNCC	2 cut(s)	26, 84
BspT107I	GGYRCC	1 cut(s)	24
BsrDI	GCAATG	1 cut(s)	271
BsrI	ACTGG	2 cut(s)	44, 70
BssECI	CCNNGG	4 cut(s)	6, 78, 86, 247
BssMI	GATC	1 cut(s)	202
BssNI	GRCGYC	1 cut(s)	25
BssT1I	CCWWGG	1 cut(s)	247
Bst2UI	CCWGG	1 cut(s)	8
Bst4CI	ACNGT	2 cut(s)	19, 101
BstACI	GRCGYC	1 cut(s)	25
BstC8I	GCNNGC	1 cut(s)	210
BstDEI	CTNAG	1 cut(s)	115
BstDSI	CCRYGG	1 cut(s)	247
BstF5I	GGATG	2 cut(s)	240, 439
BstH2I	RGCGCY	1 cut(s)	28
BstHHI	GCGC	1 cut(s)	27
BstKTI	GATC	1 cut(s)	205
BstMBI	GATC	1 cut(s)	202
BstNI	CCWGG	1 cut(s)	8
BstNSI	RCATGY	1 cut(s)	256
BstSCI	CCNGG	1 cut(s)	6
BstSFI	CTRYAG	1 cut(s)	97
BstV1I	GCAGC	1 cut(s)	392
BstXI	CCANNNNNNTGG	1 cut(s)	290
BsuRI	GGCC	2 cut(s)	5, 11
BtgI	CCRYGG	1 cut(s)	247
BtsCI	GGATG	2 cut(s)	240, 439
Cac8I	GCNNGC	1 cut(s)	210
CfoI	GCGC	1 cut(s)	27
Cfr13I	GGNCC	2 cut(s)	4, 90
Csp6I	GTAC	2 cut(s)	317, 437
CviAII	CATG	3 cut(s)	248, 253, 374
CviJI	RGCY	7 cut(s)	5, 11, 83, 176, 208, 367, 449
CviKI_1	RGCY	7 cut(s)	5, 11, 83, 176, 208, 367, 449
CviQI	GTAC	2 cut(s)	317, 437
DdeI	CTNAG	1 cut(s)	115
DinI	GGCGCC	1 cut(s)	26
DpnI	GATC	1 cut(s)	204
DpnII	GATC	1 cut(s)	202
Eco130I	CCWWGG	1 cut(s)	247
Eco47I	GGWCC	1 cut(s)	90
Eco57I	CTGAAG	1 cut(s)	461
EcoRII	CCWGG	1 cut(s)	6
EcoT14I	CCWWGG	1 cut(s)	247
EgeI	GGCGCC	1 cut(s)	26
EheI	GGCGCC	1 cut(s)	26
ErhI	CCWWGG	1 cut(s)	247
FaeI	CATG	3 cut(s)	251, 256, 377
FaiI	YATR	5 cut(s)	249, 254, 375, 429, 478
FatI	CATG	3 cut(s)	247, 252, 373
Fnu4HI	GCNGC	1 cut(s)	381
FokI	GGATG	2 cut(s)	227, 446
Fsp4HI	GCNGC	1 cut(s)	381
FspBI	CTAG	2 cut(s)	173, 392
GlaI	GCGC	1 cut(s)	26
GluI	GCNGC	1 cut(s)	381
GsaI	CCCAGC	1 cut(s)	32
GsuI	CTGGAG	1 cut(s)	53
HaeII	RGCGCY	1 cut(s)	28
HaeIII	GGCC	2 cut(s)	5, 11
HhaI	GCGC	1 cut(s)	27
Hin1I	GRCGYC	1 cut(s)	25
Hin1II	CATG	3 cut(s)	251, 256, 377
Hin6I	GCGC	1 cut(s)	25
HinP1I	GCGC	1 cut(s)	25
HincII	GTYRAC	1 cut(s)	258
HindII	GTYRAC	1 cut(s)	258
HinfI	GANTC	2 cut(s)	140, 147
HphI	GGTGA	1 cut(s)	7
Hpy166II	GTNNAC	2 cut(s)	258, 488
Hpy188I	TCNGA	3 cut(s)	118, 288, 494
Hpy188III	TCNNGA	6 cut(s)	137, 144, 151, 180, 221, 392
Hpy8I	GTNNAC	2 cut(s)	258, 488
HpyAV	CCTTC	1 cut(s)	264
HpyCH4III	ACNGT	2 cut(s)	19, 101
HpyCH4V	TGCA	1 cut(s)	212
HpyF3I	CTNAG	1 cut(s)	115
Hsp92I	GRCGYC	1 cut(s)	25
Hsp92II	CATG	3 cut(s)	251, 256, 377
HspAI	GCGC	1 cut(s)	25
KasI	GGCGCC	1 cut(s)	24
Kzo9I	GATC	1 cut(s)	202
LmnI	GCTCC	1 cut(s)	88
LpnPI	CCDG	9 cut(s)	7, 20, 42, 57, 83, 165, 206, 283, 404
Lsp1109I	GCAGC	1 cut(s)	392
MaeI	CTAG	2 cut(s)	173, 392
MaeIII	GTNAC	2 cut(s)	13, 400
MalI	GATC	1 cut(s)	204
MboI	GATC	1 cut(s)	202
MluCI	AATT	3 cut(s)	160, 184, 347
Mly113I	GGCGCC	1 cut(s)	25
MnlI	CCTC	6 cut(s)	62, 88, 96, 103, 187, 254
MseI	TTAA	2 cut(s)	128, 387
MslI	CAYNNNNRTG	1 cut(s)	288
MspR9I	CCNGG	1 cut(s)	8
MvaI	CCWGG	1 cut(s)	8
NarI	GGCGCC	1 cut(s)	25
NcoI	CCATGG	1 cut(s)	247
NdeII	GATC	1 cut(s)	202
NlaIII	CATG	3 cut(s)	251, 256, 377
NlaIV	GGNNCC	2 cut(s)	26, 84
NmeAIII	GCCGAG	1 cut(s)	59
NmuCI	GTSAC	2 cut(s)	13, 400
NspI	RCATGY	1 cut(s)	256
PfeI	GAWTC	2 cut(s)	140, 147
PkrI	GCNGC	1 cut(s)	382
PluTI	GGCGCC	1 cut(s)	28
Psp6I	CCWGG	1 cut(s)	6
PspFI	CCCAGC	1 cut(s)	28
PspGI	CCWGG	1 cut(s)	6
PspN4I	GGNNCC	2 cut(s)	26, 84
PspPI	GGNCC	2 cut(s)	4, 90
RsaI	GTAC	2 cut(s)	318, 438
RsaNI	GTAC	2 cut(s)	317, 437
RseI	CAYNNNNRTG	1 cut(s)	288
SaqAI	TTAA	2 cut(s)	128, 387
SatI	GCNGC	1 cut(s)	381
Sau3AI	GATC	1 cut(s)	202
Sau96I	GGNCC	2 cut(s)	4, 90
ScrFI	CCNGG	1 cut(s)	8
SetI	ASST	2 cut(s)	302, 451
SfcI	CTRYAG	1 cut(s)	97
SfoI	GGCGCC	1 cut(s)	26
SinI	GGWCC	1 cut(s)	90
SmiMI	CAYNNNNRTG	1 cut(s)	288
Sse9I	AATT	3 cut(s)	160, 184, 347
SsiI	CCGC	2 cut(s)	62, 360
SspDI	GGCGCC	1 cut(s)	24
SspMI	CTAG	2 cut(s)	173, 392
StyD4I	CCNGG	1 cut(s)	6
StyI	CCWWGG	1 cut(s)	247
TaaI	ACNGT	2 cut(s)	19, 101
TaqI	TCGA	1 cut(s)	195
TaqII	GACCGA	1 cut(s)	78
TasI	AATT	3 cut(s)	160, 184, 347
TatI	WGTACW	2 cut(s)	316, 436
TfiI	GAWTC	2 cut(s)	140, 147
Tru1I	TTAA	2 cut(s)	128, 387
Tru9I	TTAA	2 cut(s)	128, 387
TseFI	GTSAC	2 cut(s)	13, 400
TseI	GCWGC	1 cut(s)	380
Tsp45I	GTSAC	2 cut(s)	13, 400
TspDTI	ATGAA	2 cut(s)	229, 390
VpaK11BI	GGWCC	1 cut(s)	90
XapI	RAATTY	3 cut(s)	160, 184, 347
XbaI	TCTAGA	1 cut(s)	391
XceI	RCATGY	1 cut(s)	256
XspI	CTAG	2 cut(s)	173, 392

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