Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0002348

Physical Location & Seq

Genomic Coordinates Reverse (-)

29031469 .. 29032287

Gene Structure 819 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0258400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 384 bp

ATGACTAGGGGTGGAATTGGAGGTGTGCTTCGTGGCTCACATGGGAGTTTTAGGGCAACCTTTGCCCACACGGTTGACTGTTTGGAAGCAGTTCAGCTTATTAGCAGTACTGACCATGAGCTTGATGCAAATGGGGCTCTGTTGGATGATATTGAGGTTCTTATGAAGAGTATTCCAGGAGCAAAACTTGTTCATGCTCCTCGTACATGTAATACTGTAGCACATAGACTTGCTGCTACTGCTTTTGAATCTTTTCAGCACGAGGTGACGACTCATCACCTACCCAGACCCTCGATGAAATACAACTCTAACGCTGTTTTTGCCGAACAATGCGGAGATTTATTTCATCATCTAAGGGCGAATTATAACTCAACGCAGTTCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000175 GO:0003674 GO:0003824 GO:0004518 GO:0004527 GO:0004532 GO:0004540 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008408 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0016796 GO:0016896 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090503 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03008 map03008

Pfam Domains

Protein Families

RNase_T

Protein Analysis

127

Amino Acids

13.88

Weight (kDa)

6.53

Isoelectric Point (pI)

17.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_3	PF13456	25 - 80	4e-07	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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Publication-ready

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Orthologous Genes (Group: OG0002348)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G26970 AT2G26970
fragaria_vesca	FvH4_3g27591
malus_domestica	MD02G1268200.v1.1 MD07G1051600.v1.1
prunus_persica	Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G051000_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1 Prupe.2G053500_v2.0.a1
pyrus_communis	pycom02g22980 pycom05g27200 pycom07g03930 pycom08g10140
rosa_chinensis	RchiOBHm_Chr5g0050091
rosa_laevigata	RLG00000034685
rosa_roxburghii	Rroxscaffold_1G00031060
rosa_rugosa	Rorug05G0258300 Rorug05G0258400
rosa_samantha	Rh5AG330400 Rh5BG341100 Rh5DG353900
rosa_wichuraiana	Rw5G031210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	366
AciI	CCGC	1 cut(s)	333
AdeI	CACNNNGTG	1 cut(s)	265
AfaI	GTAC	2 cut(s)	109, 205
AflIII	ACRYGT	1 cut(s)	206
AgsI	TTSAA	1 cut(s)	248
AjnI	CCWGG	1 cut(s)	175
AluBI	AGCT	2 cut(s)	97, 121
AluI	AGCT	2 cut(s)	97, 121
ApeKI	GCWGC	1 cut(s)	233
Asp700I	GAANNNNTTC	2 cut(s)	90, 252
AsuHPI	GGTGA	2 cut(s)	269, 277
BanII	GRGCYC	1 cut(s)	139
BauI	CACGAG	1 cut(s)	260
BbvI	GCAGC	1 cut(s)	220
BciT130I	CCWGG	1 cut(s)	177
BfaI	CTAG	2 cut(s)	6, 382
BfmI	CTRYAG	1 cut(s)	216
BisI	GCNGC	1 cut(s)	234
BlsI	GCNGC	1 cut(s)	235
BmcAI	AGTACT	1 cut(s)	109
Bme1390I	CCNGG	1 cut(s)	177
BmrFI	CCNGG	1 cut(s)	177
BmsI	GCATC	1 cut(s)	115
BseBI	CCWGG	1 cut(s)	177
BseGI	GGATG	1 cut(s)	151
BseRI	GAGGAG	1 cut(s)	189
BseXI	GCAGC	1 cut(s)	220
Bsp1286I	GDGCHC	1 cut(s)	139
BspACI	CCGC	1 cut(s)	333
BssSI	CACGAG	1 cut(s)	260
Bst2BI	CACGAG	1 cut(s)	260
Bst2UI	CCWGG	1 cut(s)	177
Bst4CI	ACNGT	3 cut(s)	73, 80, 217
Bst6I	CTCTTC	1 cut(s)	161
BstAPI	GCANNNNNTGC	1 cut(s)	62
BstDEI	CTNAG	1 cut(s)	353
BstF5I	GGATG	1 cut(s)	151
BstMWI	GCNNNNNNNGC	4 cut(s)	62, 134, 239, 320
BstNI	CCWGG	1 cut(s)	177
BstNSI	RCATGY	1 cut(s)	210
BstSCI	CCNGG	1 cut(s)	175
BstSFI	CTRYAG	1 cut(s)	216
BstV1I	GCAGC	1 cut(s)	220
BtsCI	GGATG	1 cut(s)	151
Csp6I	GTAC	2 cut(s)	108, 204
CviAII	CATG	4 cut(s)	41, 116, 194, 207
CviJI	RGCY	4 cut(s)	36, 97, 121, 137
CviKI_1	RGCY	4 cut(s)	36, 97, 121, 137
CviQI	GTAC	2 cut(s)	108, 204
DdeI	CTNAG	1 cut(s)	353
DraIII	CACNNNGTG	1 cut(s)	265
Eam1104I	CTCTTC	1 cut(s)	161
EarI	CTCTTC	1 cut(s)	161
Eco24I	GRGCYC	1 cut(s)	139
EcoRII	CCWGG	1 cut(s)	175
EcoT38I	GRGCYC	1 cut(s)	139
FaeI	CATG	4 cut(s)	44, 119, 197, 210
FaiI	YATR	7 cut(s)	42, 117, 164, 195, 208, 225, 366
FatI	CATG	4 cut(s)	40, 115, 193, 206
Fnu4HI	GCNGC	1 cut(s)	234
FokI	GGATG	1 cut(s)	158
FriOI	GRGCYC	1 cut(s)	139
Fsp4HI	GCNGC	1 cut(s)	234
FspBI	CTAG	2 cut(s)	6, 382
GluI	GCNGC	1 cut(s)	234
Hin1II	CATG	4 cut(s)	44, 119, 197, 210
HincII	GTYRAC	1 cut(s)	76
HindII	GTYRAC	1 cut(s)	76
HinfI	GANTC	2 cut(s)	248, 271
HphI	GGTGA	2 cut(s)	269, 277
Hpy166II	GTNNAC	1 cut(s)	76
Hpy8I	GTNNAC	1 cut(s)	76
HpyCH4III	ACNGT	3 cut(s)	73, 80, 217
HpyCH4V	TGCA	1 cut(s)	128
HpyF10VI	GCNNNNNNNGC	4 cut(s)	62, 134, 239, 320
HpyF3I	CTNAG	1 cut(s)	353
Hsp92II	CATG	4 cut(s)	44, 119, 197, 210
LmnI	GCTCC	2 cut(s)	179, 202
LpnPI	CCDG	3 cut(s)	162, 189, 298
Lsp1109I	GCAGC	1 cut(s)	220
LweI	GCATC	1 cut(s)	115
MaeI	CTAG	2 cut(s)	6, 382
MaeIII	GTNAC	1 cut(s)	265
MboII	GAAGA	1 cut(s)	178
MhlI	GDGCHC	1 cut(s)	139
MluCI	AATT	2 cut(s)	15, 361
MlyI	GAGTC	1 cut(s)	265
MmeI	TCCRAC	1 cut(s)	123
MnlI	CCTC	5 cut(s)	14, 148, 210, 256, 301
MroXI	GAANNNNTTC	2 cut(s)	90, 252
MspR9I	CCNGG	1 cut(s)	177
MvaI	CCWGG	1 cut(s)	177
MwoI	GCNNNNNNNGC	4 cut(s)	62, 134, 239, 320
NlaIII	CATG	4 cut(s)	44, 119, 197, 210
NmuCI	GTSAC	1 cut(s)	265
NspI	RCATGY	1 cut(s)	210
PciI	ACATGT	1 cut(s)	206
PdmI	GAANNNNTTC	2 cut(s)	90, 252
PfeI	GAWTC	1 cut(s)	248
PfoI	TCCNGGA	1 cut(s)	175
PkrI	GCNGC	1 cut(s)	235
PleI	GAGTC	1 cut(s)	265
PpsI	GAGTC	1 cut(s)	265
PscI	ACATGT	1 cut(s)	206
PsiI	TTATAA	1 cut(s)	366
Psp6I	CCWGG	1 cut(s)	175
PspGI	CCWGG	1 cut(s)	175
RsaI	GTAC	2 cut(s)	109, 205
RsaNI	GTAC	2 cut(s)	108, 204
SatI	GCNGC	1 cut(s)	234
ScaI	AGTACT	1 cut(s)	109
SchI	GAGTC	1 cut(s)	265
ScrFI	CCNGG	1 cut(s)	177
SduI	GDGCHC	1 cut(s)	139
SetI	ASST	7 cut(s)	25, 62, 99, 123, 159, 267, 282
SfaNI	GCATC	1 cut(s)	115
SfcI	CTRYAG	1 cut(s)	216
Sse9I	AATT	2 cut(s)	15, 361
SsiI	CCGC	1 cut(s)	333
SspMI	CTAG	2 cut(s)	6, 382
StyD4I	CCNGG	1 cut(s)	175
TaaI	ACNGT	3 cut(s)	73, 80, 217
TaqI	TCGA	1 cut(s)	293
TasI	AATT	2 cut(s)	15, 361
TatI	WGTACW	1 cut(s)	107
TfiI	GAWTC	1 cut(s)	248
TseFI	GTSAC	1 cut(s)	265
TseI	GCWGC	1 cut(s)	233
Tsp45I	GTSAC	1 cut(s)	265
TspDTI	ATGAA	4 cut(s)	179, 182, 311, 335
XceI	RCATGY	1 cut(s)	210
XmnI	GAANNNNTTC	2 cut(s)	90, 252
XspI	CTAG	2 cut(s)	6, 382
ZrmI	AGTACT	1 cut(s)	109

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