Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0006183

Physical Location & Seq

Genomic Coordinates Reverse (-)

11623069 .. 11626642

Gene Structure 3574 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG075200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 912 bp

ATGCCAGCAACGAGGAGTCAGACCAATAATATTGTAAGATCAAAACCTGTGCAAGATTCTGGTGCAGGTTATGATGAAAAATTGGTTGAAATGATAAATAGTGCCATAGTGGATAGAAGTCCTTCTGTTAAATGGGAAGATGTTGCTGGTCTTGAGAAGGAGAAGAGATTTGTTCACTGGCCTTCGAAGGCCAGCTCGAGTCTGCTTCTGTTTGGTCCACCTGGTAATGGGAAAACCATGCTTGCTAAGGCAGTTGCTTCAGAATCAGAGGCAACCTTTTTTAATGTATCTGCATCTTCACTGACATCAAAATGGGTGGGAGAGGCTGAAAAGCTTGTGCGGACACTTTTCATGGTTGCTATATCCAGACAGCCATCTGTAATTTTCATGGATGAGATTGATAGTATCATGTCAACAAGGCAGGCAAATGAAAATGATGCAAGCAGAAGGTTGAAGTCAGAGTTTCTAATTCAGTTTGATGGAGTGACATCTAATCCTAATGATCTAGTAATTGTGATTGGTGCTACTAATAAGCCTCAAGAACTAGACGACGCAGTTCTTAGGAGATTGGTGAAGAGAGTATACATACCTTTACCAGATCTACCTGCTAGGAGACTTCTCCTAAGTCACAAACTCAAAGGCCAAGCATTTTCCTTACCAAGTGGAGATCTTGAACGACTTGCAAGAGACACTGAAGGTTATTCAGGAAGTGATCTACAAGCATTGTGTGAAGAAGCAGCAATGATGCCAATTAGGGAACTTGGTGAAAACATTCTCACCATCAAGGCAAATCAGGTAAGACCACTAATAATTGAAGATTTTCAGAAGGCAATGACTGTAATCAGGCCAAGTTTAAGCAAAAGCAAGTGGGAAGAGCTTGAACAATGGAACGAGGAATTTGGGTCTAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000226 GO:0000278 GO:0000280 GO:0000281 GO:0000910 GO:0001578 GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0006810 GO:0006928 GO:0006996 GO:0006997 GO:0006998 GO:0007010 GO:0007017 GO:0007018 GO:0007049 GO:0007051 GO:0007052 GO:0008017 GO:0008088 GO:0008089 GO:0008092 GO:0008150 GO:0008568 GO:0009987 GO:0010256 GO:0010458 GO:0010970 GO:0012505 GO:0015631 GO:0016020 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019896 GO:0022402 GO:0022411 GO:0022607 GO:0030496 GO:0030705 GO:0031090 GO:0031468 GO:0031965 GO:0031967 GO:0031975 GO:0034214 GO:0034643 GO:0042623 GO:0043014 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044770 GO:0044772 GO:0046907 GO:0047497 GO:0048285 GO:0048487 GO:0051013 GO:0051179 GO:0051228 GO:0051230 GO:0051234 GO:0051259 GO:0051260 GO:0051301 GO:0051640 GO:0051641 GO:0051646 GO:0051649 GO:0051654 GO:0051656 GO:0061024 GO:0061640 GO:0065003 GO:0071840 GO:0072384 GO:0090148 GO:0098930 GO:0099111 GO:0140014 GO:0140096 GO:1902850 GO:1903008 GO:1903047

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

AAA Vps4_C

Protein Analysis

303

Amino Acids

33.72

Weight (kDa)

5.69

Isoelectric Point (pI)

53.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NPHP3_N	PF24883	53 - 181	1e-06	Nephrocystin 3, N-terminal
AAA	PF00004	68 - 198	1.5e-39	ATPase family associated with various cellular activities (AAA)
AAA_lid_3	PF17862	223 - 257	4.5e-14	AAA+ lid 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: OG0006183)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G45500 AT2G45500 AT2G45500 AT2G45500 AT2G45500
fragaria_vesca	FvH4_7g12180 FvH4_7g12180
malus_domestica	MD02G1200800.v1.1
prunus_persica	Prupe.2G148300_v2.0.a1 Prupe.2G148300_v2.0.a1 Prupe.2G148300_v2.0.a1
pyrus_communis	pycom02g16400
rosa_chinensis	RchiOBHm_Chr1g0350931
rosa_laevigata	RLG00000028440
rosa_multiflora	Rmu_sc0002665.1_g000019 Rmu_sc0006458.1_g000018
rosa_roxburghii	Rroxscaffold_4G00304290
rosa_rugosa	Rorug01G0075600 Rorug01G0215400 Rorug01G0215400 Rorug06G0023300
rosa_samantha	Rh1AG230100 Rh1BG075200 Rh1BG200000 Rh1CG214500 Rh1DG227800
rosa_wichuraiana	Rw1G019950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	56, 613
AccI	GTMKAC	1 cut(s)	582
AciI	CCGC	1 cut(s)	340
AcsI	RAATTY	1 cut(s)	896
AcuI	CTGAAG	2 cut(s)	243, 714
AfiI	CCNNNNNNNGG	1 cut(s)	227
AgsI	TTSAA	5 cut(s)	89, 454, 674, 815, 881
AjnI	CCWGG	1 cut(s)	220
AluBI	AGCT	3 cut(s)	195, 334, 877
AluI	AGCT	3 cut(s)	195, 334, 877
Alw26I	GTCTC	2 cut(s)	607, 681
Ama87I	CYCGRG	1 cut(s)	196
AoxI	GGCC	4 cut(s)	179, 189, 640, 845
ApeKI	GCWGC	1 cut(s)	737
ApoI	RAATTY	1 cut(s)	896
Asp700I	GAANNNNTTC	3 cut(s)	121, 771, 819
AspS9I	GGNCC	1 cut(s)	215
AsuHPI	GGTGA	3 cut(s)	583, 769, 776
AsuII	TTCGAA	1 cut(s)	185
AvaI	CYCGRG	1 cut(s)	196
AvaII	GGWCC	1 cut(s)	215
BarI	GAAGNNNNNNTAC	2 cut(s)	566, 598
BbvI	GCAGC	1 cut(s)	749
BccI	CCATC	3 cut(s)	382, 473, 788
BciT130I	CCWGG	1 cut(s)	222
BcoDI	GTCTC	2 cut(s)	607, 681
BfaI	CTAG	3 cut(s)	506, 545, 609
BfuAI	ACCTGC	2 cut(s)	56, 613
BglII	AGATCT	2 cut(s)	598, 667
BisI	GCNGC	1 cut(s)	738
BlsI	GCNGC	1 cut(s)	739
Bme1390I	CCNGG	1 cut(s)	222
Bme18I	GGWCC	1 cut(s)	215
BmeT110I	CYCGRG	1 cut(s)	196
BmgT120I	GGNCC	1 cut(s)	215
BmrFI	CCNGG	1 cut(s)	222
BmsI	GCATC	3 cut(s)	302, 427, 735
Bpu10I	CCTNAGC	1 cut(s)	246
Bpu14I	TTCGAA	1 cut(s)	185
BpuEI	CTTGAG	2 cut(s)	173, 522
Bsc4I	CCNNNNNNNGG	1 cut(s)	227
Bse1I	ACTGG	1 cut(s)	182
Bse3DI	GCAATG	2 cut(s)	747, 837
BseBI	CCWGG	1 cut(s)	222
BseGI	GGATG	1 cut(s)	397
BseLI	CCNNNNNNNGG	1 cut(s)	227
BseMI	GCAATG	2 cut(s)	747, 837
BseNI	ACTGG	1 cut(s)	182
BseRI	GAGGAG	1 cut(s)	28
BseXI	GCAGC	1 cut(s)	749
BsgI	GTGCAG	1 cut(s)	84
BshFI	GGCC	4 cut(s)	181, 191, 642, 847
BsiHKCI	CYCGRG	1 cut(s)	196
BslI	CCNNNNNNNGG	1 cut(s)	227
BsmAI	GTCTC	2 cut(s)	607, 681
BsnI	GGCC	4 cut(s)	181, 191, 642, 847
BsoBI	CYCGRG	1 cut(s)	196
Bsp119I	TTCGAA	1 cut(s)	185
Bsp143I	GATC	5 cut(s)	38, 502, 598, 667, 712
BspACI	CCGC	1 cut(s)	340
BspANI	GGCC	4 cut(s)	181, 191, 642, 847
BspMI	ACCTGC	2 cut(s)	56, 613
BspQI	GCTCTTC	1 cut(s)	867
BspT104I	TTCGAA	1 cut(s)	185
BsrDI	GCAATG	2 cut(s)	747, 837
BsrI	ACTGG	1 cut(s)	182
BssMI	GATC	5 cut(s)	38, 502, 598, 667, 712
BssNAI	GTATAC	1 cut(s)	583
Bst1107I	GTATAC	1 cut(s)	583
Bst2UI	CCWGG	1 cut(s)	222
Bst4CI	ACNGT	1 cut(s)	838
Bst6I	CTCTTC	3 cut(s)	158, 569, 867
BstBI	TTCGAA	1 cut(s)	185
BstC8I	GCNNGC	5 cut(s)	6, 193, 243, 423, 442
BstDEI	CTNAG	3 cut(s)	246, 560, 623
BstF5I	GGATG	1 cut(s)	397
BstKTI	GATC	5 cut(s)	41, 505, 601, 670, 715
BstMAI	GTCTC	2 cut(s)	607, 681
BstMBI	GATC	5 cut(s)	38, 502, 598, 667, 712
BstNI	CCWGG	1 cut(s)	222
BstSCI	CCNGG	1 cut(s)	220
BstV1I	GCAGC	1 cut(s)	749
BstX2I	RGATCY	2 cut(s)	598, 667
BstYI	RGATCY	2 cut(s)	598, 667
BstZ17I	GTATAC	1 cut(s)	583
BsuRI	GGCC	4 cut(s)	181, 191, 642, 847
BtsCI	GGATG	1 cut(s)	397
BtsIMutI	CAGTG	3 cut(s)	175, 299, 690
BveI	ACCTGC	2 cut(s)	56, 613
Cac8I	GCNNGC	5 cut(s)	6, 193, 243, 423, 442
Cfr13I	GGNCC	1 cut(s)	215
CseI	GACGC	1 cut(s)	560
CsiI	ACCWGGT	1 cut(s)	220
CspCI	CAANNNNNGTGG	2 cut(s)	297, 332
CviAII	CATG	4 cut(s)	238, 352, 388, 409
DdeI	CTNAG	3 cut(s)	246, 560, 623
DpnI	GATC	5 cut(s)	40, 504, 600, 669, 714
DpnII	GATC	5 cut(s)	38, 502, 598, 667, 712
Eam1104I	CTCTTC	3 cut(s)	158, 569, 867
EarI	CTCTTC	3 cut(s)	158, 569, 867
Eco47I	GGWCC	1 cut(s)	215
Eco57I	CTGAAG	2 cut(s)	243, 714
Eco88I	CYCGRG	1 cut(s)	196
EcoRII	CCWGG	1 cut(s)	220
FaeI	CATG	4 cut(s)	241, 355, 391, 412
FaiI	YATR	9 cut(s)	72, 107, 239, 353, 362, 389, 410, 583, 587
FatI	CATG	4 cut(s)	237, 351, 387, 408
FblI	GTMKAC	1 cut(s)	582
Fnu4HI	GCNGC	1 cut(s)	738
FokI	GGATG	1 cut(s)	404
Fsp4HI	GCNGC	1 cut(s)	738
FspBI	CTAG	3 cut(s)	506, 545, 609
GluI	GCNGC	1 cut(s)	738
HaeIII	GGCC	4 cut(s)	181, 191, 642, 847
HgaI	GACGC	1 cut(s)	560
Hin1II	CATG	4 cut(s)	241, 355, 391, 412
HincII	GTYRAC	1 cut(s)	414
HindII	GTYRAC	1 cut(s)	414
HindIII	AAGCTT	1 cut(s)	332
HinfI	GANTC	4 cut(s)	16, 56, 199, 263
HphI	GGTGA	3 cut(s)	583, 769, 776
Hpy166II	GTNNAC	4 cut(s)	175, 218, 414, 583
Hpy188I	TCNGA	5 cut(s)	21, 262, 268, 460, 825
Hpy188III	TCNNGA	5 cut(s)	152, 366, 539, 671, 705
Hpy8I	GTNNAC	4 cut(s)	175, 218, 414, 583
Hpy99I	CGWCG	1 cut(s)	554
HpyAV	CCTTC	7 cut(s)	132, 151, 181, 192, 441, 689, 820
HpyCH4III	ACNGT	1 cut(s)	838
HpyCH4V	TGCA	5 cut(s)	52, 65, 293, 440, 683
HpyF3I	CTNAG	3 cut(s)	246, 560, 623
Hsp92II	CATG	4 cut(s)	241, 355, 391, 412
Kzo9I	GATC	5 cut(s)	38, 502, 598, 667, 712
LguI	GCTCTTC	1 cut(s)	867
Lsp1109I	GCAGC	1 cut(s)	749
LweI	GCATC	3 cut(s)	302, 427, 735
MabI	ACCWGGT	1 cut(s)	220
MaeI	CTAG	3 cut(s)	506, 545, 609
MaeIII	GTNAC	2 cut(s)	484, 626
MalI	GATC	5 cut(s)	40, 504, 600, 669, 714
MboI	GATC	5 cut(s)	38, 502, 598, 667, 712
MboII	GAAGA	7 cut(s)	149, 175, 288, 586, 743, 827, 884
MflI	RGATCY	2 cut(s)	598, 667
MluCI	AATT	7 cut(s)	80, 381, 468, 510, 750, 810, 896
MlyI	GAGTC	2 cut(s)	25, 208
MnlI	CCTC	5 cut(s)	6, 262, 316, 546, 886
MroXI	GAANNNNTTC	3 cut(s)	121, 771, 819
MseI	TTAA	3 cut(s)	129, 282, 854
MslI	CAYNNNNRTG	1 cut(s)	310
MspR9I	CCNGG	1 cut(s)	222
MvaI	CCWGG	1 cut(s)	222
NdeII	GATC	5 cut(s)	38, 502, 598, 667, 712
NlaIII	CATG	4 cut(s)	241, 355, 391, 412
NmuCI	GTSAC	2 cut(s)	484, 626
NspV	TTCGAA	1 cut(s)	185
PaeR7I	CTCGAG	1 cut(s)	196
PciSI	GCTCTTC	1 cut(s)	867
PdmI	GAANNNNTTC	3 cut(s)	121, 771, 819
PfeI	GAWTC	2 cut(s)	56, 263
PkrI	GCNGC	1 cut(s)	739
PleI	GAGTC	2 cut(s)	24, 207
PpsI	GAGTC	2 cut(s)	24, 207
Psp6I	CCWGG	1 cut(s)	220
PspGI	CCWGG	1 cut(s)	220
PspPI	GGNCC	1 cut(s)	215
PspXI	VCTCGAGB	1 cut(s)	196
PsuI	RGATCY	2 cut(s)	598, 667
RseI	CAYNNNNRTG	1 cut(s)	310
SapI	GCTCTTC	1 cut(s)	867
SaqAI	TTAA	3 cut(s)	129, 282, 854
SatI	GCNGC	1 cut(s)	738
Sau3AI	GATC	5 cut(s)	38, 502, 598, 667, 712
Sau96I	GGNCC	1 cut(s)	215
SchI	GAGTC	2 cut(s)	25, 208
ScrFI	CCNGG	1 cut(s)	222
SexAI	ACCWGGT	1 cut(s)	220
SfaNI	GCATC	3 cut(s)	302, 427, 735
Sfr274I	CTCGAG	1 cut(s)	196
SfuI	TTCGAA	1 cut(s)	185
SinI	GGWCC	1 cut(s)	215
SlaI	CTCGAG	1 cut(s)	196
SmiMI	CAYNNNNRTG	1 cut(s)	310
SmlI	CTYRAG	3 cut(s)	152, 196, 537
SmoI	CTYRAG	3 cut(s)	152, 196, 537
Sse9I	AATT	7 cut(s)	80, 381, 468, 510, 750, 810, 896
SsiI	CCGC	1 cut(s)	340
SspI	AATATT	1 cut(s)	31
SspMI	CTAG	3 cut(s)	506, 545, 609
StyD4I	CCNGG	1 cut(s)	220
TaaI	ACNGT	1 cut(s)	838
TaqI	TCGA	2 cut(s)	185, 197
TasI	AATT	7 cut(s)	80, 381, 468, 510, 750, 810, 896
TfiI	GAWTC	2 cut(s)	56, 263
Tru1I	TTAA	3 cut(s)	129, 282, 854
Tru9I	TTAA	3 cut(s)	129, 282, 854
TscAI	CASTG	3 cut(s)	182, 306, 697
TseFI	GTSAC	2 cut(s)	484, 626
TseI	GCWGC	1 cut(s)	737
Tsp45I	GTSAC	2 cut(s)	484, 626
TspDTI	ATGAA	4 cut(s)	90, 340, 376, 444
TspRI	CASTG	3 cut(s)	182, 306, 697
VpaK11BI	GGWCC	1 cut(s)	215
XapI	RAATTY	1 cut(s)	896
XhoI	CTCGAG	1 cut(s)	196
XmiI	GTMKAC	1 cut(s)	582
XmnI	GAANNNNTTC	3 cut(s)	121, 771, 819
XspI	CTAG	3 cut(s)	506, 545, 609

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