Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0010518

Physical Location & Seq

Genomic Coordinates Reverse (-)

8264347 .. 8265565

Gene Structure 1219 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0098700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1128 bp

ATGTCCATGCTTTCTAAACAAGCGTGGCGTGTGGTTTCTAATCCTGAAACTTTGATTGCACAACTTTACAAGGCACGCTACTTCCCGGATGGCTCTTTTTGGATTGCTACGGAGCATGCATCTCCTTCATATTCTTGGTGTAACATTTTTGCTACTAGGGATCTGCTAAGAGATGGTTGTCTTTGGCAAATTGGGGATGGTGTTAGTGTTTCTGTGTTGCATGATTCTTGGATTCCTTCATTGCCCTCTCATAAACCGCAAGGTATTACTGCTAACCAGAATGATGTGGTGCTCGTAAGTGATCTTATTGTGGCTCCTAACGTGTGGAATGAAGAGAAGATGCGTAGCTCTTTTGGTGTCACTGAGGCAGAAGCTATACTCTCTATTCCATTGAGTAATCGTTGCCCTAATGATCGACTGACTTGGCACTTGGAGAAAAGAGGTATGTTCACTGTGAAATCTACATATCGTTCTGCTTTTACCAAAACTGCTTCATCTCTTCATCCGTCTGTAGTAGTTAATCAAAGAGTATGGAAGAAAATATGGCAAGCCAAAATGCCTAGTTCTGCGAAGGTGAATGCTTGGAAGATTGGTCATAATATTCTTCCAACTTTGGATAGACTATCTTCACGACATGTTGTTTTGGAATCCCATACTTGTGTGCTCTGTAATGCAGAGGATGAAACAATCATTCATCTTTGTCAAAACTGTCCTTACTCTCGAGAAACAAGCTTTCTAAGACAGCTTTTGCACAGTTATTATTCTCCATTTGGGGTATATGGGAAGGAGAGAAACATTCGTGTTTGGGAGAACAAGAATACTTCTTCAGCTGATGTTGCTCTTTTGTGCTCAACAAGACTTAGTAATTATGTATTTTACAATACCAAGGTTCAGAGGGTGCATAATATAAGAAGAGTTCACAAATGGAAAGCTCCTCCACAAGGTTGGCTGAAAATTAATTTCGATGGGGCTTTTAATGGCAGCAATGGTAAGGCTGTTGTAGGAGTGTTGATCCGTGATGAATTGGGAGTTTGTTTGGGAGCTCTAGGGAGAGCATTCCCTTCTATTCGATCTGCAGAGCATGCAGAACTAATGGCTTGCATAATCGGAGCTTCTAGGAGTTTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0046983 GO:0097159 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ZF-HD_dimer

Protein Analysis

375

Amino Acids

42.26

Weight (kDa)

9.4

Isoelectric Point (pI)

49.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RVT	PF13966	150 - 242	1.2e-15	zinc-binding in reverse transcriptase
RVT_3	PF13456	320 - 370	7.6e-07	Reverse transcriptase-like

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

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

Orthologous Genes (Group: OG0010518)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g13170 FvH4_1g13170 FvH4_1g13170 FvH4_1g13170
malus_domestica	MD02G1146300.v1.1 MD15G1260600.v1.1
prunus_persica	Prupe.7G155700_v2.0.a1 Prupe.7G155700_v2.0.a1 Prupe.7G155700_v2.0.a1
pyrus_communis	pycom02g11590
rosa_chinensis	RchiOBHm_Chr2g0101391
rosa_laevigata	RLG00000017074
rosa_multiflora	Rmu_sc0006128.1_g000009
rosa_roxburghii	Rroxscaffold_2G00141340
rosa_rugosa	Rorug02G0098600 Rorug02G0098700
rosa_samantha	Rh2AG146500 Rh2BG151800 Rh2CG152500 Rh2DG151900
rosa_wichuraiana	Rw2G011420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	257
AclWI	GGATC	2 cut(s)	168, 1006
AcuI	CTGAAG	1 cut(s)	810
AfiI	CCNNNNNNNGG	1 cut(s)	941
AflIII	ACRYGT	2 cut(s)	321, 634
AluBI	AGCT	8 cut(s)	348, 374, 732, 745, 830, 932, 1043, 1112
AluI	AGCT	8 cut(s)	348, 374, 732, 745, 830, 932, 1043, 1112
Alw21I	GWGCWC	4 cut(s)	294, 666, 851, 1045
AlwI	GGATC	2 cut(s)	168, 1006
Ama87I	CYCGRG	1 cut(s)	720
ApeKI	GCWGC	1 cut(s)	981
AseI	ATTAAT	1 cut(s)	957
AsuC2I	CCSGG	1 cut(s)	86
AsuHPI	GGTGA	1 cut(s)	586
AvaI	CYCGRG	1 cut(s)	720
BanII	GRGCYC	1 cut(s)	1045
Bbv12I	GWGCWC	4 cut(s)	294, 666, 851, 1045
BbvI	GCAGC	1 cut(s)	993
BccI	CCATC	4 cut(s)	83, 167, 191, 959
BcnI	CCSGG	1 cut(s)	86
BfaI	CTAG	4 cut(s)	156, 561, 1046, 1116
BfmI	CTRYAG	2 cut(s)	510, 1074
BisI	GCNGC	1 cut(s)	982
BlsI	GCNGC	1 cut(s)	983
Bme1390I	CCNGG	1 cut(s)	86
BmeT110I	CYCGRG	1 cut(s)	720
BmiI	GGNNCC	1 cut(s)	315
BmrFI	CCNGG	1 cut(s)	86
BmsI	GCATC	2 cut(s)	128, 330
BpuMI	CCSGG	1 cut(s)	86
BsaJI	CCNNGG	1 cut(s)	885
Bsc4I	CCNNNNNNNGG	1 cut(s)	941
Bse3DI	GCAATG	2 cut(s)	239, 991
BseDI	CCNNGG	1 cut(s)	885
BseGI	GGATG	4 cut(s)	94, 202, 502, 685
BseLI	CCNNNNNNNGG	1 cut(s)	941
BseMI	GCAATG	2 cut(s)	239, 991
BseMII	CTCAG	1 cut(s)	354
BseRI	GAGGAG	1 cut(s)	924
BseXI	GCAGC	1 cut(s)	993
BsiHKAI	GWGCWC	4 cut(s)	294, 666, 851, 1045
BsiHKCI	CYCGRG	1 cut(s)	720
BsiSI	CCGG	1 cut(s)	86
BslI	CCNNNNNNNGG	1 cut(s)	941
BsmI	GAATGC	2 cut(s)	583, 1055
BsoBI	CYCGRG	1 cut(s)	720
Bsp1286I	GDGCHC	4 cut(s)	294, 666, 851, 1045
Bsp143I	GATC	5 cut(s)	160, 301, 412, 1011, 1070
BspACI	CCGC	1 cut(s)	257
BspCNI	CTCAG	1 cut(s)	355
BspLI	GGNNCC	1 cut(s)	315
BspMAI	CTGCAG	1 cut(s)	1078
BspPI	GGATC	2 cut(s)	168, 1006
BsrDI	GCAATG	2 cut(s)	239, 991
BssECI	CCNNGG	1 cut(s)	885
BssMI	GATC	5 cut(s)	160, 301, 412, 1011, 1070
BssT1I	CCWWGG	1 cut(s)	885
Bst4CI	ACNGT	3 cut(s)	454, 710, 755
Bst6I	CTCTTC	3 cut(s)	327, 504, 907
BstAPI	GCANNNNNTGC	1 cut(s)	1082
BstC8I	GCNNGC	5 cut(s)	76, 117, 549, 1083, 1099
BstDEI	CTNAG	4 cut(s)	167, 363, 737, 860
BstENI	CCTNNNNNAGG	1 cut(s)	939
BstF5I	GGATG	4 cut(s)	94, 202, 502, 685
BstKTI	GATC	5 cut(s)	163, 304, 415, 1014, 1073
BstMBI	GATC	5 cut(s)	160, 301, 412, 1011, 1070
BstMWI	GCNNNNNNNGC	2 cut(s)	836, 1082
BstNSI	RCATGY	3 cut(s)	119, 638, 1085
BstSCI	CCNGG	1 cut(s)	84
BstSFI	CTRYAG	2 cut(s)	510, 1074
BstV1I	GCAGC	1 cut(s)	993
BstX2I	RGATCY	1 cut(s)	160
BstXI	CCANNNNNNTGG	1 cut(s)	945
BstYI	RGATCY	1 cut(s)	160
BtsCI	GGATG	4 cut(s)	94, 202, 502, 685
BtsIMutI	CAGTG	2 cut(s)	360, 450
Cac8I	GCNNGC	5 cut(s)	76, 117, 549, 1083, 1099
CviAII	CATG	5 cut(s)	7, 116, 221, 635, 1082
DdeI	CTNAG	4 cut(s)	167, 363, 737, 860
DpnI	GATC	5 cut(s)	162, 303, 414, 1013, 1072
DpnII	GATC	5 cut(s)	160, 301, 412, 1011, 1070
Eam1104I	CTCTTC	3 cut(s)	327, 504, 907
EarI	CTCTTC	3 cut(s)	327, 504, 907
Ecl136II	GAGCTC	1 cut(s)	1043
Eco130I	CCWWGG	1 cut(s)	885
Eco24I	GRGCYC	1 cut(s)	1045
Eco53kI	GAGCTC	1 cut(s)	1043
Eco57I	CTGAAG	1 cut(s)	810
Eco88I	CYCGRG	1 cut(s)	720
EcoICRI	GAGCTC	1 cut(s)	1043
EcoNI	CCTNNNNNAGG	1 cut(s)	939
EcoT14I	CCWWGG	1 cut(s)	885
EcoT22I	ATGCAT	1 cut(s)	121
EcoT38I	GRGCYC	1 cut(s)	1045
ErhI	CCWWGG	1 cut(s)	885
FaeI	CATG	5 cut(s)	10, 119, 224, 638, 1085
FatI	CATG	5 cut(s)	6, 115, 220, 634, 1081
Fnu4HI	GCNGC	1 cut(s)	982
FokI	GGATG	4 cut(s)	101, 209, 489, 692
FriOI	GRGCYC	1 cut(s)	1045
Fsp4HI	GCNGC	1 cut(s)	982
FspBI	CTAG	4 cut(s)	156, 561, 1046, 1116
GluI	GCNGC	1 cut(s)	982
HapII	CCGG	1 cut(s)	86
Hin1II	CATG	5 cut(s)	10, 119, 224, 638, 1085
HindIII	AAGCTT	1 cut(s)	730
HinfI	GANTC	3 cut(s)	224, 232, 647
HpaII	CCGG	1 cut(s)	86
HphI	GGTGA	1 cut(s)	586
Hpy166II	GTNNAC	2 cut(s)	450, 919
Hpy188I	TCNGA	2 cut(s)	894, 1109
Hpy188III	TCNNGA	4 cut(s)	44, 630, 720, 722
Hpy8I	GTNNAC	2 cut(s)	450, 919
HpyAV	CCTTC	5 cut(s)	135, 246, 565, 778, 1071
HpyCH4III	ACNGT	3 cut(s)	454, 710, 755
HpyCH4IV	ACGT	1 cut(s)	321
HpyCH4V	TGCA	9 cut(s)	59, 119, 220, 674, 751, 901, 1076, 1085, 1101
HpyF10VI	GCNNNNNNNGC	2 cut(s)	836, 1082
HpyF3I	CTNAG	4 cut(s)	167, 363, 737, 860
HpySE526I	ACGT	1 cut(s)	321
Hsp92II	CATG	5 cut(s)	10, 119, 224, 638, 1085
Kzo9I	GATC	5 cut(s)	160, 301, 412, 1011, 1070
LmnI	GCTCC	5 cut(s)	112, 319, 937, 1040, 1109
LpnPI	CCDG	3 cut(s)	57, 99, 290
Lsp1109I	GCAGC	1 cut(s)	993
LweI	GCATC	2 cut(s)	128, 330
MaeI	CTAG	4 cut(s)	156, 561, 1046, 1116
MaeII	ACGT	1 cut(s)	321
MaeIII	GTNAC	2 cut(s)	140, 358
MalI	GATC	5 cut(s)	162, 303, 414, 1013, 1072
MboI	GATC	5 cut(s)	160, 301, 412, 1011, 1070
MboII	GAAGA	9 cut(s)	344, 349, 491, 547, 596, 598, 618, 816, 924
MflI	RGATCY	1 cut(s)	160
MhlI	GDGCHC	4 cut(s)	294, 666, 851, 1045
MluCI	AATT	5 cut(s)	189, 865, 954, 958, 1022
MmeI	TCCRAC	1 cut(s)	632
MnlI	CCTC	6 cut(s)	256, 358, 434, 670, 888, 945
Mph1103I	ATGCAT	1 cut(s)	121
MseI	TTAA	3 cut(s)	519, 957, 975
MslI	CAYNNNNRTG	1 cut(s)	657
MspA1I	CMGCKG	1 cut(s)	830
MspI	CCGG	1 cut(s)	86
MspR9I	CCNGG	1 cut(s)	86
Mva1269I	GAATGC	2 cut(s)	583, 1055
MwoI	GCNNNNNNNGC	2 cut(s)	836, 1082
NciI	CCSGG	1 cut(s)	86
NdeII	GATC	5 cut(s)	160, 301, 412, 1011, 1070
NlaIII	CATG	5 cut(s)	10, 119, 224, 638, 1085
NlaIV	GGNNCC	1 cut(s)	315
NmuCI	GTSAC	1 cut(s)	358
NsiI	ATGCAT	1 cut(s)	121
NspI	RCATGY	3 cut(s)	119, 638, 1085
PaeI	GCATGC	2 cut(s)	119, 1085
PaeR7I	CTCGAG	1 cut(s)	720
PciI	ACATGT	1 cut(s)	634
PctI	GAATGC	2 cut(s)	583, 1055
PfeI	GAWTC	3 cut(s)	224, 232, 647
PfoI	TCCNGGA	1 cut(s)	84
PkrI	GCNGC	1 cut(s)	983
PscI	ACATGT	1 cut(s)	634
PshBI	ATTAAT	1 cut(s)	957
Psp124BI	GAGCTC	1 cut(s)	1045
PspN4I	GGNNCC	1 cut(s)	315
PstI	CTGCAG	1 cut(s)	1078
PsuI	RGATCY	1 cut(s)	160
PvuII	CAGCTG	1 cut(s)	830
RseI	CAYNNNNRTG	1 cut(s)	657
SacI	GAGCTC	1 cut(s)	1045
SaqAI	TTAA	3 cut(s)	519, 957, 975
SatI	GCNGC	1 cut(s)	982
Sau3AI	GATC	5 cut(s)	160, 301, 412, 1011, 1070
ScrFI	CCNGG	1 cut(s)	86
SduI	GDGCHC	4 cut(s)	294, 666, 851, 1045
SfaNI	GCATC	2 cut(s)	128, 330
SfcI	CTRYAG	2 cut(s)	510, 1074
Sfr274I	CTCGAG	1 cut(s)	720
SlaI	CTCGAG	1 cut(s)	720
SmiMI	CAYNNNNRTG	1 cut(s)	657
SmlI	CTYRAG	1 cut(s)	720
SmoI	CTYRAG	1 cut(s)	720
SphI	GCATGC	2 cut(s)	119, 1085
Sse9I	AATT	5 cut(s)	189, 865, 954, 958, 1022
SsiI	CCGC	1 cut(s)	257
SspI	AATATT	1 cut(s)	601
SspMI	CTAG	4 cut(s)	156, 561, 1046, 1116
SstI	GAGCTC	1 cut(s)	1045
StyD4I	CCNGG	1 cut(s)	84
StyI	CCWWGG	1 cut(s)	885
TaaI	ACNGT	3 cut(s)	454, 710, 755
TaiI	ACGT	1 cut(s)	324
TaqI	TCGA	4 cut(s)	415, 721, 963, 1069
TasI	AATT	5 cut(s)	189, 865, 954, 958, 1022
TfiI	GAWTC	3 cut(s)	224, 232, 647
Tru1I	TTAA	3 cut(s)	519, 957, 975
Tru9I	TTAA	3 cut(s)	519, 957, 975
TscAI	CASTG	2 cut(s)	367, 457
TseFI	GTSAC	1 cut(s)	358
TseI	GCWGC	1 cut(s)	981
Tsp45I	GTSAC	1 cut(s)	358
TspDTI	ATGAA	8 cut(s)	117, 228, 345, 483, 491, 683, 696, 1035
TspGWI	ACGGA	3 cut(s)	125, 495, 1004
TspRI	CASTG	2 cut(s)	367, 457
VspI	ATTAAT	1 cut(s)	957
XagI	CCTNNNNNAGG	1 cut(s)	939
XceI	RCATGY	3 cut(s)	119, 638, 1085
XhoI	CTCGAG	1 cut(s)	720
XspI	CTAG	4 cut(s)	156, 561, 1046, 1116
Zsp2I	ATGCAT	1 cut(s)	121

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