Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0018779

Physical Location & Seq

Genomic Coordinates Forward (+)

60300214 .. 60300651

Gene Structure 438 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG385800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 438 bp

ATGGAGTTTGATAGTAGTGGTGAAAATAATGAGGGTGGTGAAAATAGTGAAGCTAGGAATGGTGAGGGCAGTTCTCAGGGTGTTGTAGCTCAAGGGAGAGAAAGTAGGCAGCCGCCATGGATGGGGGATTATGTCAGCGGAGAAGGACTAAGTGAAGGTGAGGAAGAAGCCTATATGATACAAGATGTTGCAGCTGAAGACCCCATTATGTTCGAAGATGCTGTGAGACAAGAAAAGTGGAGAAAGGCCATGGATAGTGAAATAAACTCCATTGAAAAGAATCAGACTTGGAAGCTCATGAACCTGCCAGCTGGAGCTAAAACCATTGGTGTTAAGTGGATCTTCAAGACGAAACTGAACGAGCACGGTGAAGTTGACAAGTATAAAGCTCGACTAGTGGCAAAGGGATACTCTCAAGTCTCAACAGCAGGGAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009790 GO:0009791 GO:0009793 GO:0009987 GO:0010154 GO:0016070 GO:0016787 GO:0016788 GO:0022414 GO:0032501 GO:0032502 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0061458 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_1 PPR_2 PPR_3

Protein Analysis

145

Amino Acids

16.05

Weight (kDa)

4.71

Isoelectric Point (pI)

39.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RVT_2	PF07727	94 - 141	2.4e-12	Reverse transcriptase (RNA-dependent DNA polymerase)

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: OG0018779)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g19621 FvH4_3g45131 FvH4_5g34741 FvH4_6g26671
rosa_multiflora	Rmu_co8341233.1_g000001 Rmu_co8379441.1_g000001 Rmu_sc0004553.1_g000011 Rmu_sc0008215.1_g000005
rosa_samantha	Rh4DG385800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	312
AciI	CCGC	2 cut(s)	113, 138
AclWI	GGATC	1 cut(s)	347
AcuI	CTGAAG	1 cut(s)	216
AfiI	CCNNNNNNNGG	1 cut(s)	122
AgsI	TTSAA	2 cut(s)	275, 346
AhlI	ACTAGT	1 cut(s)	394
AluBI	AGCT	7 cut(s)	53, 89, 194, 295, 311, 317, 389
AluI	AGCT	7 cut(s)	53, 89, 194, 295, 311, 317, 389
Alw21I	GWGCWC	1 cut(s)	366
Alw26I	GTCTC	2 cut(s)	220, 424
AlwI	GGATC	1 cut(s)	347
AoxI	GGCC	1 cut(s)	246
ApeKI	GCWGC	2 cut(s)	109, 191
AsuHPI	GGTGA	5 cut(s)	32, 50, 74, 170, 380
AsuII	TTCGAA	1 cut(s)	213
BbsI	GAAGAC	1 cut(s)	204
Bbv12I	GWGCWC	1 cut(s)	366
BbvI	GCAGC	2 cut(s)	121, 203
BccI	CCATC	1 cut(s)	115
BciVI	GTATCC	1 cut(s)	401
BcoDI	GTCTC	2 cut(s)	220, 424
BcuI	ACTAGT	1 cut(s)	394
BfaI	CTAG	2 cut(s)	54, 395
BfuAI	ACCTGC	1 cut(s)	312
BfuI	GTATCC	1 cut(s)	401
BisI	GCNGC	3 cut(s)	110, 113, 192
BlsI	GCNGC	3 cut(s)	111, 114, 193
BmsI	GCATC	1 cut(s)	208
BpiI	GAAGAC	1 cut(s)	204
BpmI	CTGGAG	1 cut(s)	333
Bpu14I	TTCGAA	1 cut(s)	213
BpuEI	CTTGAG	2 cut(s)	75, 399
BsaJI	CCNNGG	2 cut(s)	116, 249
BsaXI	ACNNNNNCTCC	2 cut(s)	88, 118
Bsc4I	CCNNNNNNNGG	1 cut(s)	122
BseDI	CCNNGG	2 cut(s)	116, 249
BseGI	GGATG	1 cut(s)	126
BseLI	CCNNNNNNNGG	1 cut(s)	122
BseMII	CTCAG	1 cut(s)	89
BseXI	GCAGC	2 cut(s)	121, 203
BshFI	GGCC	1 cut(s)	248
BsiHKAI	GWGCWC	1 cut(s)	366
BslI	CCNNNNNNNGG	1 cut(s)	122
BsmAI	GTCTC	2 cut(s)	220, 424
BsnI	GGCC	1 cut(s)	248
Bsp119I	TTCGAA	1 cut(s)	213
Bsp1286I	GDGCHC	1 cut(s)	366
Bsp143I	GATC	1 cut(s)	339
Bsp19I	CCATGG	2 cut(s)	116, 249
BspACI	CCGC	2 cut(s)	113, 138
BspANI	GGCC	1 cut(s)	248
BspCNI	CTCAG	1 cut(s)	88
BspHI	TCATGA	1 cut(s)	297
BspMI	ACCTGC	1 cut(s)	312
BspPI	GGATC	1 cut(s)	347
BspT104I	TTCGAA	1 cut(s)	213
BssECI	CCNNGG	2 cut(s)	116, 249
BssMI	GATC	1 cut(s)	339
BssT1I	CCWWGG	2 cut(s)	116, 249
Bst4CI	ACNGT	1 cut(s)	368
BstBI	TTCGAA	1 cut(s)	213
BstC8I	GCNNGC	1 cut(s)	309
BstDEI	CTNAG	2 cut(s)	75, 149
BstDSI	CCRYGG	2 cut(s)	116, 249
BstF5I	GGATG	1 cut(s)	126
BstKTI	GATC	1 cut(s)	342
BstMAI	GTCTC	2 cut(s)	220, 424
BstMBI	GATC	1 cut(s)	339
BstV1I	GCAGC	2 cut(s)	121, 203
BstV2I	GAAGAC	1 cut(s)	204
BstX2I	RGATCY	1 cut(s)	339
BstYI	RGATCY	1 cut(s)	339
BsuI	GTATCC	1 cut(s)	401
BsuRI	GGCC	1 cut(s)	248
BtgI	CCRYGG	2 cut(s)	116, 249
BtsCI	GGATG	1 cut(s)	126
BveI	ACCTGC	1 cut(s)	312
Cac8I	GCNNGC	1 cut(s)	309
CciI	TCATGA	1 cut(s)	297
CspCI	CAANNNNNGTGG	2 cut(s)	218, 253
CviAII	CATG	3 cut(s)	117, 250, 298
DdeI	CTNAG	2 cut(s)	75, 149
DpnI	GATC	1 cut(s)	341
DpnII	GATC	1 cut(s)	339
Eco130I	CCWWGG	2 cut(s)	116, 249
Eco57I	CTGAAG	1 cut(s)	216
EcoT14I	CCWWGG	2 cut(s)	116, 249
ErhI	CCWWGG	2 cut(s)	116, 249
FaeI	CATG	3 cut(s)	120, 253, 301
FaiI	YATR	8 cut(s)	118, 132, 174, 176, 209, 251, 299, 384
FalI	AAGNNNNNCTT	2 cut(s)	326, 358
FatI	CATG	3 cut(s)	116, 249, 297
Fnu4HI	GCNGC	3 cut(s)	110, 113, 192
FokI	GGATG	1 cut(s)	133
Fsp4HI	GCNGC	3 cut(s)	110, 113, 192
FspBI	CTAG	2 cut(s)	54, 395
GluI	GCNGC	3 cut(s)	110, 113, 192
GsuI	CTGGAG	1 cut(s)	333
HaeIII	GGCC	1 cut(s)	248
Hin1II	CATG	3 cut(s)	120, 253, 301
HincII	GTYRAC	1 cut(s)	376
HindII	GTYRAC	1 cut(s)	376
HinfI	GANTC	1 cut(s)	280
HphI	GGTGA	5 cut(s)	32, 50, 74, 170, 380
Hpy166II	GTNNAC	1 cut(s)	376
Hpy188I	TCNGA	1 cut(s)	285
Hpy188III	TCNNGA	2 cut(s)	298, 346
Hpy8I	GTNNAC	1 cut(s)	376
HpyAV	CCTTC	2 cut(s)	137, 149
HpyCH4III	ACNGT	1 cut(s)	368
HpyCH4V	TGCA	1 cut(s)	191
HpyF3I	CTNAG	2 cut(s)	75, 149
Hsp92II	CATG	3 cut(s)	120, 253, 301
Kzo9I	GATC	1 cut(s)	339
LmnI	GCTCC	1 cut(s)	314
LpnPI	CCDG	5 cut(s)	62, 297, 317, 321, 414
Lsp1109I	GCAGC	2 cut(s)	121, 203
LweI	GCATC	1 cut(s)	208
MaeI	CTAG	2 cut(s)	54, 395
MalI	GATC	1 cut(s)	341
MboI	GATC	1 cut(s)	339
MboII	GAAGA	4 cut(s)	176, 209, 227, 334
MflI	RGATCY	1 cut(s)	339
MhlI	GDGCHC	1 cut(s)	366
MluCI	AATT	1 cut(s)	433
MnlI	CCTC	3 cut(s)	25, 58, 154
MseI	TTAA	1 cut(s)	333
MspA1I	CMGCKG	3 cut(s)	138, 194, 311
NcoI	CCATGG	2 cut(s)	116, 249
NdeII	GATC	1 cut(s)	339
NlaIII	CATG	3 cut(s)	120, 253, 301
NspV	TTCGAA	1 cut(s)	213
PagI	TCATGA	1 cut(s)	297
PfeI	GAWTC	1 cut(s)	280
PkrI	GCNGC	3 cut(s)	111, 114, 193
PsuI	RGATCY	1 cut(s)	339
PvuII	CAGCTG	2 cut(s)	194, 311
SaqAI	TTAA	1 cut(s)	333
SatI	GCNGC	3 cut(s)	110, 113, 192
Sau3AI	GATC	1 cut(s)	339
SduI	GDGCHC	1 cut(s)	366
SetI	ASST	9 cut(s)	55, 91, 160, 196, 297, 306, 313, 319, 391
SfaNI	GCATC	1 cut(s)	208
SfuI	TTCGAA	1 cut(s)	213
SmlI	CTYRAG	2 cut(s)	90, 414
SmoI	CTYRAG	2 cut(s)	90, 414
SpeI	ACTAGT	1 cut(s)	394
Sse9I	AATT	1 cut(s)	433
SsiI	CCGC	2 cut(s)	113, 138
SspMI	CTAG	2 cut(s)	54, 395
StyI	CCWWGG	2 cut(s)	116, 249
TaaI	ACNGT	1 cut(s)	368
TaqI	TCGA	2 cut(s)	213, 391
TasI	AATT	1 cut(s)	433
TauI	GCSGC	1 cut(s)	115
TfiI	GAWTC	1 cut(s)	280
Tru1I	TTAA	1 cut(s)	333
Tru9I	TTAA	1 cut(s)	333
TseI	GCWGC	2 cut(s)	109, 191
TspDTI	ATGAA	1 cut(s)	314
XspI	CTAG	2 cut(s)	54, 395

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