Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0001657

Physical Location & Seq

Genomic Coordinates Reverse (-)

31717414 .. 31718478

Gene Structure 1065 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0279200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1065 bp

ATGACACCACCAGGCGACTGGGCGTGCGGCGGCGAGTTCGGGAGGCGCCGGGTCCTGAGCTGGAGGTGGCCGGAGGGTGGTGAAAAAGCCGGGTCGGGTCGAGCTCGACCCGCCGGGTCTGAGGGTTTTCGATCGAGAGAGAGAGCTAAGGTACACATTTGGCGAGTGTGTCATGATATTCTACCTTCATTGGAGCGACTTGCTTCAAAGAGGGTTGATTTAGAGTCCATGCTTTGTCCTTTGTGTTCGTTGGCAGTGGAGTCTACTCTTCACCTTTGTCGAGCCTGTAGTTTCACAAGGCAGTTGCTGCAAATCAATGCTGTGGTATCTCAGGTTTGTTACAACCCCCATTTTGCTCATCACAATCTGTTGGAATGGTTCTGCGCTTGTGCTAGTGAACTTTCTTTGGGAAGTTTGGGTGAGTTAGTATATTTACTATGGGGTGTTTGGAAAGAACGCAATTGTCGTGTTTGGGATGACAAGGCTAGCTCCGTTAATGATGTGTTGATCAGGACAGTTTCTAGGCTACAAGATTTCAGGTTTCATGCAATGAAATCGAGTAGAACTGGCAGTAGAGGAGTAAGGGTGACCCGCTGGGTAGCTCCTCCAATAGGTTGGTTTAAGATTAATGTTGCTACGAAGACAGGAAGTGGAGGTTTTGTTATACGGGATTGGCAGGGTACTATGCTTGCTGGTGGTGGGAAGCCGTTGGTTGGTTTGATCTCTCCAGAGCATGCAGAAGTAGAAGCTTATAAGCATGCTGTGAAGTTTGCGGTTGAACAGGCTTTTATGCCTACTATGATTGAAACTGATTCACTCTTAGTGCAGCAACAGTTGGTAAGTCATGTTGGGGTCAATACATCAGTGTTGGGACGTCTTTATGAAGACTTGGGGGTTACTCTGGCTGTTAACCCAAATTTGCAAGTTGTGCATACCAAAAGGAGTGCAAATAAGATGGCTCATCTTATGGCAGCTTCTTGCTCCTCAATTCCAAATGAGGTTTTTTATTTTTCTGCACCTTCCTTCTTACAAGCTGCTTTAGCAGCTGAAGCTTATAATTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000045 GO:0006810 GO:0006914 GO:0006996 GO:0007033 GO:0007034 GO:0008150 GO:0008152 GO:0009056 GO:0009987 GO:0016043 GO:0016192 GO:0016236 GO:0022607 GO:0030587 GO:0031154 GO:0032502 GO:0044085 GO:0044237 GO:0044248 GO:0045324 GO:0046907 GO:0048856 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0051703 GO:0051704 GO:0061919 GO:0070925 GO:0071840 GO:0090702 GO:0099120 GO:1905037

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Chorein_N SHR-BD VPS13 VPS13_C VPS13_mid_rpt

Protein Analysis

354

Amino Acids

39.22

Weight (kDa)

9.07

Isoelectric Point (pI)

50.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	48 - 102	9.8e-07	zinc-binding in reverse transcriptase
RVT_3	PF13456	211 - 327	1.4e-15	Reverse transcriptase-like

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001657)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G24740 AT5G24740 AT5G24740 AT5G24740 AT5G24740 AT5G24740
fragaria_vesca	FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300 FvH4_6g36300
malus_domestica	MD09G1170300.v1.1 MD17G1156800.v1.1
prunus_persica	Prupe.3G028500_v2.0.a1 Prupe.3G028500_v2.0.a1 Prupe.3G028500_v2.0.a1
pyrus_communis	pycom09g08790 pycom17g15020
rosa_chinensis	RchiOBHm_Chr2g0148301 RchiOBHm_Chr2g0148311 RchiOBHm_Chr5g0051461
rosa_laevigata	RLG00000020335
rosa_multiflora	Rmu_sc0004032.1_g000013 Rmu_sc0022189.1_g000006
rosa_roxburghii	Rroxscaffold_1G00027070 Rroxscaffold_2G00098910 Rroxscaffold_2G00098920
rosa_rugosa	Rorug02G0405600 Rorug05G0279200
rosa_samantha	Rh2AG464200 Rh2BG477200 Rh2CG450900 Rh2DG486000 Rh5AG350300 Rh5AG350400 Rh5BG362600 Rh5CG387200 Rh5DG377000
rosa_wichuraiana	Rw2G037840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	753, 1056
AatII	GACGTC	1 cut(s)	877
AccB1I	GGYRCC	1 cut(s)	45
AccI	GTMKAC	1 cut(s)	263
AciI	CCGC	5 cut(s)	27, 30, 111, 592, 773
AcoI	YGGCCR	1 cut(s)	68
AcsI	RAATTY	1 cut(s)	916
AcyI	GRCGYC	2 cut(s)	46, 874
AfaI	GTAC	2 cut(s)	153, 682
AfiI	CCNNNNNNNGG	3 cut(s)	77, 611, 713
AgsI	TTSAA	3 cut(s)	207, 779, 806
AjnI	CCWGG	1 cut(s)	10
Alw21I	GWGCWC	1 cut(s)	106
AlwNI	CAGNNNCTG	1 cut(s)	307
AoxI	GGCC	1 cut(s)	68
ApeKI	GCWGC	5 cut(s)	307, 826, 971, 1034, 1043
ApoI	RAATTY	1 cut(s)	916
AseI	ATTAAT	1 cut(s)	627
AspLEI	GCGC	2 cut(s)	48, 386
AspS9I	GGNCC	1 cut(s)	52
AsuC2I	CCSGG	3 cut(s)	50, 91, 115
AsuHPI	GGTGA	4 cut(s)	92, 263, 431, 598
AsuNHI	GCTAGC	1 cut(s)	485
AvaII	GGWCC	1 cut(s)	52
BanI	GGYRCC	1 cut(s)	45
BanII	GRGCYC	1 cut(s)	106
BbsI	GAAGAC	2 cut(s)	647, 891
Bbv12I	GWGCWC	1 cut(s)	106
BbvI	GCAGC	5 cut(s)	294, 838, 983, 1021, 1055
BccI	CCATC	1 cut(s)	949
BceAI	ACGGC	1 cut(s)	691
BcgI	CGANNNNNNTGC	2 cut(s)	537, 571
BciT130I	CCWGG	1 cut(s)	12
BclI	TGATCA	1 cut(s)	507
BcnI	CCSGG	3 cut(s)	50, 91, 115
BfaI	CTAG	3 cut(s)	393, 486, 522
BfmI	CTRYAG	1 cut(s)	286
BfoI	RGCGCY	1 cut(s)	49
BisI	GCNGC	7 cut(s)	28, 31, 308, 827, 972, 1035, 1044
BlsI	GCNGC	7 cut(s)	29, 32, 309, 828, 973, 1036, 1045
Bme1390I	CCNGG	4 cut(s)	12, 50, 91, 115
Bme18I	GGWCC	1 cut(s)	52
BmgT120I	GGNCC	1 cut(s)	52
BmiI	GGNNCC	2 cut(s)	47, 53
BmrFI	CCNGG	4 cut(s)	12, 50, 91, 115
BmrI	ACTGGG	1 cut(s)	28
BmtI	GCTAGC	1 cut(s)	489
BmuI	ACTGGG	1 cut(s)	28
BpiI	GAAGAC	2 cut(s)	647, 891
BpmI	CTGGAG	2 cut(s)	82, 711
Bpu10I	CCTNAGC	2 cut(s)	56, 147
BpuMI	CCSGG	3 cut(s)	50, 91, 115
BsaHI	GRCGYC	2 cut(s)	46, 874
BsaXI	ACNNNNNCTCC	4 cut(s)	570, 600, 645, 675
Bsc4I	CCNNNNNNNGG	3 cut(s)	77, 611, 713
Bse1I	ACTGG	2 cut(s)	23, 571
Bse3DI	GCAATG	1 cut(s)	555
BseBI	CCWGG	1 cut(s)	12
BseGI	GGATG	1 cut(s)	481
BseLI	CCNNNNNNNGG	3 cut(s)	77, 611, 713
BseMI	GCAATG	1 cut(s)	555
BseMII	CTCAG	3 cut(s)	47, 111, 344
BseNI	ACTGG	2 cut(s)	23, 571
BseRI	GAGGAG	3 cut(s)	591, 594, 973
BseXI	GCAGC	5 cut(s)	294, 838, 983, 1021, 1055
BseYI	CCCAGC	1 cut(s)	594
BsgI	GTGCAG	2 cut(s)	845, 999
Bsh1285I	CGRYCG	1 cut(s)	134
BshFI	GGCC	1 cut(s)	70
BshNI	GGYRCC	1 cut(s)	45
BsiEI	CGRYCG	1 cut(s)	134
BsiHKAI	GWGCWC	1 cut(s)	106
BsiSI	CCGG	4 cut(s)	49, 71, 90, 114
BslFI	GGGAC	1 cut(s)	885
BslI	CCNNNNNNNGG	3 cut(s)	77, 611, 713
BsmFI	GGGAC	1 cut(s)	885
BsnI	GGCC	1 cut(s)	70
Bsp1286I	GDGCHC	1 cut(s)	106
Bsp143I	GATC	3 cut(s)	131, 507, 720
BspACI	CCGC	5 cut(s)	27, 30, 111, 592, 773
BspANI	GGCC	1 cut(s)	70
BspCNI	CTCAG	3 cut(s)	48, 112, 343
BspHI	TCATGA	1 cut(s)	172
BspLI	GGNNCC	2 cut(s)	47, 53
BspOI	GCTAGC	1 cut(s)	489
BspT107I	GGYRCC	1 cut(s)	45
BsrDI	GCAATG	1 cut(s)	555
BsrI	ACTGG	2 cut(s)	23, 571
BssMI	GATC	3 cut(s)	131, 507, 720
BssNI	GRCGYC	2 cut(s)	46, 874
Bst2UI	CCWGG	1 cut(s)	12
Bst4CI	ACNGT	2 cut(s)	517, 834
Bst6I	CTCTTC	1 cut(s)	273
BstACI	GRCGYC	2 cut(s)	46, 874
BstAPI	GCANNNNNTGC	2 cut(s)	307, 928
BstC8I	GCNNGC	5 cut(s)	25, 487, 690, 735, 759
BstDEI	CTNAG	5 cut(s)	56, 120, 147, 330, 820
BstEII	GGTNACC	1 cut(s)	586
BstENI	CCTNNNNNAGG	1 cut(s)	609
BstF5I	GGATG	1 cut(s)	481
BstH2I	RGCGCY	1 cut(s)	49
BstHHI	GCGC	2 cut(s)	48, 386
BstKTI	GATC	3 cut(s)	134, 510, 723
BstMBI	GATC	3 cut(s)	131, 507, 720
BstMCI	CGRYCG	1 cut(s)	134
BstMWI	GCNNNNNNNGC	6 cut(s)	110, 307, 928, 1040, 1043, 1049
BstNI	CCWGG	1 cut(s)	12
BstNSI	RCATGY	2 cut(s)	737, 761
BstPI	GGTNACC	1 cut(s)	586
BstSCI	CCNGG	4 cut(s)	10, 48, 89, 113
BstSFI	CTRYAG	1 cut(s)	286
BstV1I	GCAGC	5 cut(s)	294, 838, 983, 1021, 1055
BstV2I	GAAGAC	2 cut(s)	647, 891
BstXI	CCANNNNNNTGG	2 cut(s)	18, 615
BsuRI	GGCC	1 cut(s)	70
BtsCI	GGATG	1 cut(s)	481
BtsI	GCAGTG	1 cut(s)	261
BtsIMutI	CAGTG	2 cut(s)	261, 870
Cac8I	GCNNGC	5 cut(s)	25, 487, 690, 735, 759
CaiI	CAGNNNCTG	1 cut(s)	307
CciI	TCATGA	1 cut(s)	172
CfoI	GCGC	2 cut(s)	48, 386
Cfr13I	GGNCC	1 cut(s)	52
Csp6I	GTAC	2 cut(s)	152, 681
CviAII	CATG	6 cut(s)	173, 229, 545, 734, 758, 845
CviQI	GTAC	2 cut(s)	152, 681
DdeI	CTNAG	5 cut(s)	56, 120, 147, 330, 820
DinI	GGCGCC	1 cut(s)	47
DpnI	GATC	3 cut(s)	133, 509, 722
DpnII	GATC	3 cut(s)	131, 507, 720
EaeI	YGGCCR	1 cut(s)	68
Eam1104I	CTCTTC	1 cut(s)	273
EarI	CTCTTC	1 cut(s)	273
Ecl136II	GAGCTC	1 cut(s)	104
Eco24I	GRGCYC	1 cut(s)	106
Eco47I	GGWCC	1 cut(s)	52
Eco53kI	GAGCTC	1 cut(s)	104
Eco91I	GGTNACC	1 cut(s)	586
EcoICRI	GAGCTC	1 cut(s)	104
EcoNI	CCTNNNNNAGG	1 cut(s)	609
EcoO109I	RGGNCCY	1 cut(s)	52
EcoO65I	GGTNACC	1 cut(s)	586
EcoRII	CCWGG	1 cut(s)	10
EcoT38I	GRGCYC	1 cut(s)	106
EgeI	GGCGCC	1 cut(s)	47
EheI	GGCGCC	1 cut(s)	47
FaeI	CATG	6 cut(s)	176, 232, 548, 737, 761, 848
FaqI	GGGAC	1 cut(s)	885
FatI	CATG	6 cut(s)	172, 228, 544, 733, 757, 844
FauI	CCCGC	2 cut(s)	118, 599
FbaI	TGATCA	1 cut(s)	507
FblI	GTMKAC	1 cut(s)	263
Fnu4HI	GCNGC	7 cut(s)	28, 31, 308, 827, 972, 1035, 1044
FokI	GGATG	1 cut(s)	488
FriOI	GRGCYC	1 cut(s)	106
Fsp4HI	GCNGC	7 cut(s)	28, 31, 308, 827, 972, 1035, 1044
FspBI	CTAG	3 cut(s)	393, 486, 522
GlaI	GCGC	2 cut(s)	47, 385
GluI	GCNGC	7 cut(s)	28, 31, 308, 827, 972, 1035, 1044
GsaI	CCCAGC	1 cut(s)	598
GsuI	CTGGAG	2 cut(s)	82, 711
HaeII	RGCGCY	1 cut(s)	49
HaeIII	GGCC	1 cut(s)	70
HapII	CCGG	4 cut(s)	49, 71, 90, 114
HhaI	GCGC	2 cut(s)	48, 386
Hin1I	GRCGYC	2 cut(s)	46, 874
Hin1II	CATG	6 cut(s)	176, 232, 548, 737, 761, 848
Hin6I	GCGC	2 cut(s)	46, 384
HinP1I	GCGC	2 cut(s)	46, 384
HincII	GTYRAC	1 cut(s)	910
HindII	GTYRAC	1 cut(s)	910
HindIII	AAGCTT	2 cut(s)	747, 1050
HinfI	GANTC	3 cut(s)	224, 260, 812
HpaI	GTTAAC	1 cut(s)	910
HpaII	CCGG	4 cut(s)	49, 71, 90, 114
HphI	GGTGA	4 cut(s)	92, 263, 431, 598
Hpy166II	GTNNAC	4 cut(s)	154, 264, 398, 910
Hpy188I	TCNGA	1 cut(s)	121
Hpy188III	TCNNGA	6 cut(s)	40, 55, 135, 173, 511, 728
Hpy8I	GTNNAC	4 cut(s)	154, 264, 398, 910
HpyAV	CCTTC	3 cut(s)	195, 1029, 1033
HpyCH4III	ACNGT	2 cut(s)	517, 834
HpyCH4IV	ACGT	1 cut(s)	874
HpyCH4V	TGCA	8 cut(s)	310, 548, 737, 826, 922, 931, 947, 1016
HpyF10VI	GCNNNNNNNGC	6 cut(s)	110, 307, 928, 1040, 1043, 1049
HpyF3I	CTNAG	5 cut(s)	56, 120, 147, 330, 820
HpySE526I	ACGT	1 cut(s)	874
Hsp92I	GRCGYC	2 cut(s)	46, 874
Hsp92II	CATG	6 cut(s)	176, 232, 548, 737, 761, 848
HspAI	GCGC	2 cut(s)	46, 384
KasI	GGCGCC	1 cut(s)	45
Ksp22I	TGATCA	1 cut(s)	507
KspAI	GTTAAC	1 cut(s)	910
Kzo9I	GATC	3 cut(s)	131, 507, 720
LmnI	GCTCC	4 cut(s)	193, 494, 607, 986
Lsp1109I	GCAGC	5 cut(s)	294, 838, 983, 1021, 1055
MaeI	CTAG	3 cut(s)	393, 486, 522
MaeII	ACGT	1 cut(s)	874
MaeIII	GTNAC	3 cut(s)	338, 586, 895
MalI	GATC	3 cut(s)	133, 509, 722
MboI	GATC	3 cut(s)	131, 507, 720
MboII	GAAGA	3 cut(s)	260, 652, 896
MfeI	CAATTG	1 cut(s)	460
MhlI	GDGCHC	1 cut(s)	106
MluCI	AATT	4 cut(s)	460, 916, 987, 1057
Mly113I	GGCGCC	1 cut(s)	46
MlyI	GAGTC	2 cut(s)	233, 269
MmeI	TCCRAC	1 cut(s)	351
MseI	TTAA	4 cut(s)	495, 621, 627, 909
MspA1I	CMGCKG	2 cut(s)	594, 1046
MspI	CCGG	4 cut(s)	49, 71, 90, 114
MspR9I	CCNGG	4 cut(s)	12, 50, 91, 115
MunI	CAATTG	1 cut(s)	460
MvaI	CCWGG	1 cut(s)	12
MwoI	GCNNNNNNNGC	6 cut(s)	110, 307, 928, 1040, 1043, 1049
NarI	GGCGCC	1 cut(s)	46
NciI	CCSGG	3 cut(s)	50, 91, 115
NdeII	GATC	3 cut(s)	131, 507, 720
NheI	GCTAGC	1 cut(s)	485
NlaIII	CATG	6 cut(s)	176, 232, 548, 737, 761, 848
NlaIV	GGNNCC	2 cut(s)	47, 53
NmuCI	GTSAC	1 cut(s)	586
NspI	RCATGY	2 cut(s)	737, 761
PaeI	GCATGC	2 cut(s)	737, 761
PagI	TCATGA	1 cut(s)	172
PcsI	WCGNNNNNNNCGW	1 cut(s)	463
PfeI	GAWTC	1 cut(s)	812
PkrI	GCNGC	7 cut(s)	29, 32, 309, 828, 973, 1036, 1045
Ple19I	CGATCG	1 cut(s)	134
PleI	GAGTC	2 cut(s)	232, 268
PluTI	GGCGCC	1 cut(s)	49
PpsI	GAGTC	2 cut(s)	232, 268
PpuMI	RGGWCCY	1 cut(s)	52
PshBI	ATTAAT	1 cut(s)	627
PsiI	TTATAA	2 cut(s)	753, 1056
Psp124BI	GAGCTC	1 cut(s)	106
Psp5II	RGGWCCY	1 cut(s)	52
Psp6I	CCWGG	1 cut(s)	10
PspEI	GGTNACC	1 cut(s)	586
PspFI	CCCAGC	1 cut(s)	594
PspGI	CCWGG	1 cut(s)	10
PspN4I	GGNNCC	2 cut(s)	47, 53
PspPI	GGNCC	1 cut(s)	52
PspPPI	RGGWCCY	1 cut(s)	52
PstNI	CAGNNNCTG	1 cut(s)	307
PvuI	CGATCG	1 cut(s)	134
PvuII	CAGCTG	1 cut(s)	1046
RsaI	GTAC	2 cut(s)	153, 682
RsaNI	GTAC	2 cut(s)	152, 681
SacI	GAGCTC	1 cut(s)	106
SaqAI	TTAA	4 cut(s)	495, 621, 627, 909
SatI	GCNGC	7 cut(s)	28, 31, 308, 827, 972, 1035, 1044
Sau3AI	GATC	3 cut(s)	131, 507, 720
Sau96I	GGNCC	1 cut(s)	52
SchI	GAGTC	2 cut(s)	233, 269
ScrFI	CCNGG	4 cut(s)	12, 50, 91, 115
SduI	GDGCHC	1 cut(s)	106
SfcI	CTRYAG	1 cut(s)	286
SfoI	GGCGCC	1 cut(s)	47
SinI	GGWCC	1 cut(s)	52
SphI	GCATGC	2 cut(s)	737, 761
Sse9I	AATT	4 cut(s)	460, 916, 987, 1057
SsiI	CCGC	5 cut(s)	27, 30, 111, 592, 773
SspDI	GGCGCC	1 cut(s)	45
SspMI	CTAG	3 cut(s)	393, 486, 522
SstI	GAGCTC	1 cut(s)	106
StyD4I	CCNGG	4 cut(s)	10, 48, 89, 113
TaaI	ACNGT	2 cut(s)	517, 834
TaiI	ACGT	1 cut(s)	877
TaqI	TCGA	6 cut(s)	100, 106, 130, 134, 280, 557
TasI	AATT	4 cut(s)	460, 916, 987, 1057
TauI	GCSGC	2 cut(s)	30, 33
TfiI	GAWTC	1 cut(s)	812
Tru1I	TTAA	4 cut(s)	495, 621, 627, 909
Tru9I	TTAA	4 cut(s)	495, 621, 627, 909
TscAI	CASTG	2 cut(s)	261, 870
TseFI	GTSAC	1 cut(s)	586
TseI	GCWGC	5 cut(s)	307, 826, 971, 1034, 1043
Tsp45I	GTSAC	1 cut(s)	586
TspDTI	ATGAA	4 cut(s)	177, 533, 566, 897
TspGWI	ACGGA	1 cut(s)	481
TspRI	CASTG	2 cut(s)	261, 870
VpaK11BI	GGWCC	1 cut(s)	52
VspI	ATTAAT	1 cut(s)	627
XagI	CCTNNNNNAGG	1 cut(s)	609
XapI	RAATTY	1 cut(s)	916
XceI	RCATGY	2 cut(s)	737, 761
XcmI	CCANNNNNNNNNTGG	1 cut(s)	15
XmiI	GTMKAC	1 cut(s)	263
XspI	CTAG	3 cut(s)	393, 486, 522
ZraI	GACGTC	1 cut(s)	875

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