Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0002551

Physical Location & Seq

Genomic Coordinates Forward (+)

63794546 .. 63821150

Gene Structure 26605 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG439700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 636 bp

ATGCAGTGCTCTGTTTTGCTCTTACGCATGATCTGGTTCATGCCCAAGATAAACAATCAGGCTTCATCAGCTTGGACTGTGGACTGTGGACTGCCATCAGATTCTTCCTACTCTGAGCCAACCACAAGTGCAAACAAAGACTCTAAGCAACAGATTAGCCACTTTATTTTCAGGGAGAGGAGACTAGAGTTGTTTGCAAACTGGAGAGCTAAGGGTGGTGTTTTCTTGATTGGCTACTCTACTTTCAGAAACTTATCCCTTGGAACCTGCAATGGAAGGATTTGCTTCCATCAGAATGGGTTCAGGTTTTTTAGATTTGGTACTGAAGTTAGTAAACCAATGAATAAATTGACCAAGAAGCATACTGATGTATTGGGACCCTTTTTTGGAAATACCAAGTATTCATATCTACGACAAAAAAGAATTTGCTGGTACATGTATCTAGATGATGTGACTATCTGTTTGCCACATGACGGATATAGGGATGTACTGAAGTTAGCTGATAACTTTGGGCAATGTATTTCCATTTCCTTGATGAAGGAGCTGTGTGAATTATTTTGTGAATTGAGTAACAATGCTTCAATCTATTTTGGTCAGTTTCCTTTGAAGTTTGAAGTGATCTCATCATTCAAGTGA

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

211

Amino Acids

24.46

Weight (kDa)

9.15

Isoelectric Point (pI)

27.62

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)
Acc36I	ACCTGC	1 cut(s)	275
AcsI	RAATTY	1 cut(s)	423
AcuI	CTGAAG	2 cut(s)	345, 512
AfaI	GTAC	3 cut(s)	322, 434, 489
AfiI	CCNNNNNNNGG	2 cut(s)	386, 473
AflIII	ACRYGT	1 cut(s)	435
AgsI	TTSAA	4 cut(s)	582, 607, 614, 631
AluBI	AGCT	4 cut(s)	71, 209, 500, 544
AluI	AGCT	4 cut(s)	71, 209, 500, 544
Alw21I	GWGCWC	1 cut(s)	11
Alw26I	GTCTC	1 cut(s)	175
ApoI	RAATTY	1 cut(s)	423
ArsI	GACNNNNNNTTYG	2 cut(s)	445, 477
Asp700I	GAANNNNTTC	1 cut(s)	299
AspS9I	GGNCC	1 cut(s)	377
AvaII	GGWCC	1 cut(s)	377
BaeI	ACNNNNGTAYC	2 cut(s)	312, 345
BarI	GAAGNNNNNNTAC	2 cut(s)	562, 594
Bbv12I	GWGCWC	1 cut(s)	11
BccI	CCATC	2 cut(s)	103, 297
BcoDI	GTCTC	1 cut(s)	175
BfaI	CTAG	2 cut(s)	185, 443
BfuAI	ACCTGC	1 cut(s)	275
Bme18I	GGWCC	1 cut(s)	377
BmgT120I	GGNCC	1 cut(s)	377
BmiI	GGNNCC	3 cut(s)	265, 378, 379
BpmI	CTGGAG	1 cut(s)	223
Bpu10I	CCTNAGC	1 cut(s)	210
BsaJI	CCNNGG	1 cut(s)	259
Bsc4I	CCNNNNNNNGG	2 cut(s)	386, 473
Bse1I	ACTGG	1 cut(s)	206
Bse3DI	GCAATG	2 cut(s)	277, 521
BseDI	CCNNGG	1 cut(s)	259
BseGI	GGATG	1 cut(s)	490
BseLI	CCNNNNNNNGG	2 cut(s)	386, 473
BseMI	GCAATG	2 cut(s)	277, 521
BseMII	CTCAG	1 cut(s)	105
BseNI	ACTGG	1 cut(s)	206
BseRI	GAGGAG	1 cut(s)	193
BsiHKAI	GWGCWC	1 cut(s)	11
BslFI	GGGAC	1 cut(s)	390
BslI	CCNNNNNNNGG	2 cut(s)	386, 473
BsmAI	GTCTC	1 cut(s)	175
BsmFI	GGGAC	1 cut(s)	390
Bsp1286I	GDGCHC	1 cut(s)	11
Bsp143I	GATC	2 cut(s)	30, 618
BspCNI	CTCAG	1 cut(s)	106
BspLI	GGNNCC	3 cut(s)	265, 378, 379
BspMI	ACCTGC	1 cut(s)	275
BsrDI	GCAATG	2 cut(s)	277, 521
BsrI	ACTGG	1 cut(s)	206
BssECI	CCNNGG	1 cut(s)	259
BssMI	GATC	2 cut(s)	30, 618
BssT1I	CCWWGG	1 cut(s)	259
Bst4CI	ACNGT	2 cut(s)	79, 86
BstDEI	CTNAG	3 cut(s)	114, 144, 210
BstF5I	GGATG	1 cut(s)	490
BstKTI	GATC	2 cut(s)	33, 621
BstMAI	GTCTC	1 cut(s)	175
BstMBI	GATC	2 cut(s)	30, 618
BstMWI	GCNNNNNNNGC	1 cut(s)	68
BstNSI	RCATGY	1 cut(s)	439
BstXI	CCANNNNNNTGG	1 cut(s)	296
BtsCI	GGATG	1 cut(s)	490
BtsI	GCAGTG	1 cut(s)	11
BtsIMutI	CAGTG	1 cut(s)	11
BveI	ACCTGC	1 cut(s)	275
Cfr13I	GGNCC	1 cut(s)	377
Csp6I	GTAC	3 cut(s)	321, 433, 488
CviAII	CATG	4 cut(s)	28, 40, 436, 470
CviJI	RGCY	8 cut(s)	62, 71, 118, 159, 209, 234, 500, 544
CviKI_1	RGCY	8 cut(s)	62, 71, 118, 159, 209, 234, 500, 544
CviQI	GTAC	3 cut(s)	321, 433, 488
DdeI	CTNAG	3 cut(s)	114, 144, 210
DpnI	GATC	2 cut(s)	32, 620
DpnII	GATC	2 cut(s)	30, 618
Eco130I	CCWWGG	1 cut(s)	259
Eco47I	GGWCC	1 cut(s)	377
Eco57I	CTGAAG	2 cut(s)	345, 512
EcoO109I	RGGNCCY	1 cut(s)	377
EcoT14I	CCWWGG	1 cut(s)	259
ErhI	CCWWGG	1 cut(s)	259
FaeI	CATG	4 cut(s)	31, 43, 439, 473
FaiI	YATR	7 cut(s)	29, 41, 363, 406, 437, 471, 480
FaqI	GGGAC	1 cut(s)	390
FatI	CATG	4 cut(s)	27, 39, 435, 469
FokI	GGATG	1 cut(s)	497
FspBI	CTAG	2 cut(s)	185, 443
GsuI	CTGGAG	1 cut(s)	223
Hin1II	CATG	4 cut(s)	31, 43, 439, 473
HinfI	GANTC	2 cut(s)	101, 140
Hpy166II	GTNNAC	3 cut(s)	82, 89, 335
Hpy188I	TCNGA	4 cut(s)	100, 115, 248, 294
Hpy188III	TCNNGA	2 cut(s)	226, 443
Hpy8I	GTNNAC	3 cut(s)	82, 89, 335
HpyAV	CCTTC	2 cut(s)	270, 532
HpyCH4III	ACNGT	2 cut(s)	79, 86
HpyCH4V	TGCA	4 cut(s)	4, 131, 197, 270
HpyF10VI	GCNNNNNNNGC	1 cut(s)	68
HpyF3I	CTNAG	3 cut(s)	114, 144, 210
Hsp92II	CATG	4 cut(s)	31, 43, 439, 473
KflI	GGGWCCC	1 cut(s)	377
Kzo9I	GATC	2 cut(s)	30, 618
LmnI	GCTCC	1 cut(s)	541
LpnPI	CCDG	7 cut(s)	19, 44, 157, 187, 280, 289, 415
MaeI	CTAG	2 cut(s)	185, 443
MaeIII	GTNAC	2 cut(s)	451, 569
MalI	GATC	2 cut(s)	32, 620
MboI	GATC	2 cut(s)	30, 618
MboII	GAAGA	1 cut(s)	96
MhlI	GDGCHC	1 cut(s)	11
MluCI	AATT	4 cut(s)	347, 423, 551, 563
MlyI	GAGTC	1 cut(s)	134
MnlI	CCTC	1 cut(s)	171
MroXI	GAANNNNTTC	1 cut(s)	299
MslI	CAYNNNNRTG	3 cut(s)	294, 366, 631
MwoI	GCNNNNNNNGC	1 cut(s)	68
NdeII	GATC	2 cut(s)	30, 618
NlaIII	CATG	4 cut(s)	31, 43, 439, 473
NlaIV	GGNNCC	3 cut(s)	265, 378, 379
NmuCI	GTSAC	1 cut(s)	451
NspI	RCATGY	1 cut(s)	439
PciI	ACATGT	1 cut(s)	435
PdmI	GAANNNNTTC	1 cut(s)	299
PfeI	GAWTC	1 cut(s)	101
PleI	GAGTC	1 cut(s)	134
PpsI	GAGTC	1 cut(s)	134
PpuMI	RGGWCCY	1 cut(s)	377
PscI	ACATGT	1 cut(s)	435
Psp5II	RGGWCCY	1 cut(s)	377
PspN4I	GGNNCC	3 cut(s)	265, 378, 379
PspPI	GGNCC	1 cut(s)	377
PspPPI	RGGWCCY	1 cut(s)	377
RsaI	GTAC	3 cut(s)	322, 434, 489
RsaNI	GTAC	3 cut(s)	321, 433, 488
RseI	CAYNNNNRTG	3 cut(s)	294, 366, 631
Sau3AI	GATC	2 cut(s)	30, 618
Sau96I	GGNCC	1 cut(s)	377
SchI	GAGTC	1 cut(s)	134
SduI	GDGCHC	1 cut(s)	11
SetI	ASST	6 cut(s)	73, 211, 269, 308, 502, 546
SinI	GGWCC	1 cut(s)	377
SmiMI	CAYNNNNRTG	3 cut(s)	294, 366, 631
Sse9I	AATT	4 cut(s)	347, 423, 551, 563
SspMI	CTAG	2 cut(s)	185, 443
StyI	CCWWGG	1 cut(s)	259
TaaI	ACNGT	2 cut(s)	79, 86
TasI	AATT	4 cut(s)	347, 423, 551, 563
TatI	WGTACW	1 cut(s)	487
TfiI	GAWTC	1 cut(s)	101
TseFI	GTSAC	1 cut(s)	451
Tsp45I	GTSAC	1 cut(s)	451
TspDTI	ATGAA	5 cut(s)	28, 54, 356, 393, 551
TspGWI	ACGGA	1 cut(s)	489
VpaK11BI	GGWCC	1 cut(s)	377
XapI	RAATTY	1 cut(s)	423
XbaI	TCTAGA	1 cut(s)	442
XceI	RCATGY	1 cut(s)	439
XmnI	GAANNNNTTC	1 cut(s)	299
XspI	CTAG	2 cut(s)	185, 443

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