Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000411

Physical Location & Seq

Genomic Coordinates Reverse (-)

68839525 .. 68840699

Gene Structure 1175 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG397400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 375 bp

ATGTTTTCAATCGATGGTTGTCTGCACAGAATGAGCTGCGAAGAGTACAAACAATCACATCCATTTCCTCCCAAAGAAGATCAACTGCTGAATTCATTGGCTACAACAAAACAGTGGCGCAACTGTAAGAAGTGCAACCACATGGTTGAACTTGCAGAAGGTTGTAACCACATCACTTGCAGGTGTGGATATGAGTTCTGCTACACTTGTGGAGTTGAATGGAAGAACAAGAAACCAACATGTTCCTGCCCACTCTGGGATGAGCACTACATAATACATGAGCAGCCGCATCCAGTGCAGCCCATTGTACGTGTGCGCCCACGACAAGTTGCACCAGGAAATGAACAGCCAAGGCAGGTACGACCACGACGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0000209 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006464 GO:0006807 GO:0008150 GO:0008152 GO:0009653 GO:0009893 GO:0009894 GO:0009896 GO:0009987 GO:0010604 GO:0016567 GO:0016740 GO:0019222 GO:0019538 GO:0019787 GO:0019899 GO:0030154 GO:0030162 GO:0030435 GO:0031323 GO:0031325 GO:0031329 GO:0031331 GO:0031624 GO:0032268 GO:0032270 GO:0032434 GO:0032436 GO:0032446 GO:0032502 GO:0032991 GO:0036211 GO:0042176 GO:0043170 GO:0043412 GO:0043934 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044390 GO:0044424 GO:0044464 GO:0045732 GO:0045862 GO:0048518 GO:0048522 GO:0048646 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0061136 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0080090 GO:0140096 GO:1901564 GO:1901800 GO:1902494 GO:1903050 GO:1903052 GO:1903362 GO:1903364 GO:1990234 GO:2000058 GO:2000060

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

IBR RVT_3 zf-C3HC4

Protein Analysis

124

Amino Acids

14.64

Weight (kDa)

8.67

Isoelectric Point (pI)

63.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
IBR	PF01485	29 - 81	2.9e-08	IBR domain, a half RING-finger domain
Rcat_RNF216	PF26200	35 - 76	3.3e-08	RNF216 Rcat domain
IBR_1	PF22191	41 - 78	2e-07	IBR 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: OG0000411)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G45470 AT3G45555 AT5G60250
fragaria_vesca	FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33450 FvH4_3g33470 FvH4_3g33471 FvH4_3g33480 FvH4_3g33480
malus_domestica	MD03G1130800.v1.1 MD11G1125600.v1.1 MD11G1125700.v1.1 MD11G1125800.v1.1 MD11G1126100.v1.1 MD11G1152600.v1.1
prunus_persica	Prupe.6G094100_v2.0.a1 Prupe.6G094100_v2.0.a1 Prupe.6G094200_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G094500_v2.0.a1 Prupe.6G115600_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1 Prupe.6G115700_v2.0.a1
pyrus_communis	pycom11g10590 pycom11g10600 pycom11g10620 pycom11g10640 pycom11g12510
rosa_chinensis	RchiOBHm_Chr5g0060811 RchiOBHm_Chr5g0060821 RchiOBHm_Chr5g0060851 RchiOBHm_Chr5g0060881 RchiOBHm_Chr5g0060891
rosa_laevigata	RLG00000035404 RLG00000035405 RLG00000035407 RLG00000035408
rosa_multiflora	Rmu_sc0000420.1_g000048 Rmu_sc0000420.1_g000049 Rmu_sc0000727.1_g000006 Rmu_sc0000727.1_g000007 Rmu_sc0000727.1_g000024 Rmu_sc0000727.1_g000025 Rmu_sc0024212.1_g000001 Rmu_sc0024212.1_g000003 Rmu_sc0027900.1_g000003 Rmu_sc0030258.1_g000001
rosa_roxburghii	Rroxscaffold_1G00019780 Rroxscaffold_1G00019790 Rroxscaffold_1G00019800 Rroxscaffold_1G00019810 Rroxscaffold_1G00019820 Rroxscaffold_1G00019840 Rroxscaffold_1G00019850
rosa_rugosa	Rorug05G0334200 Rorug05G0334300 Rorug05G0334400 Rorug05G0334500 Rorug05G0334600 Rorug05G0334700
rosa_samantha	Rh4BG359600 Rh4CG373900 Rh5AG397000 Rh5AG397100 Rh5AG397200 Rh5AG397300 Rh5AG397400 Rh5AG397500 Rh5AG397600 Rh5AG397700 Rh5BG409300 Rh5BG409400 Rh5BG409800 Rh5BG409900 Rh5BG410000 Rh5BG410100 Rh5CG434100 Rh5CG434200 Rh5CG434600 Rh5CG434700 Rh5CG434800 Rh5CG434900 Rh5CG435000 Rh5DG424100 Rh5DG424200 Rh5DG424400 Rh5DG424500 Rh5DG424600 Rh5DG424800
rosa_wichuraiana	Rw5G037420 Rw5G037430 Rw5G037480 Rw5G037490 Rw5G037500

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	171
Acc36I	ACCTGC	2 cut(s)	171, 346
AciI	CCGC	1 cut(s)	287
AcsI	RAATTY	1 cut(s)	91
AfaI	GTAC	3 cut(s)	47, 309, 360
AfiI	CCNNNNNNNGG	1 cut(s)	256
AflIII	ACRYGT	2 cut(s)	239, 310
AgsI	TTSAA	3 cut(s)	9, 149, 218
AjnI	CCWGG	1 cut(s)	334
AluBI	AGCT	1 cut(s)	36
AluI	AGCT	1 cut(s)	36
Alw21I	GWGCWC	1 cut(s)	267
ApeKI	GCWGC	3 cut(s)	36, 283, 298
ApoI	RAATTY	1 cut(s)	91
AspLEI	GCGC	2 cut(s)	120, 318
Bbv12I	GWGCWC	1 cut(s)	267
BbvI	GCAGC	3 cut(s)	23, 295, 310
BccI	CCATC	1 cut(s)	8
BciT130I	CCWGG	1 cut(s)	336
BfuAI	ACCTGC	2 cut(s)	171, 346
BisI	GCNGC	4 cut(s)	37, 284, 287, 299
BlsI	GCNGC	4 cut(s)	38, 285, 288, 300
Bme1390I	CCNGG	1 cut(s)	336
BmrFI	CCNGG	1 cut(s)	336
BmsI	GCATC	1 cut(s)	298
Bsa29I	ATCGAT	1 cut(s)	12
BsaAI	YACGTR	1 cut(s)	311
BsaJI	CCNNGG	1 cut(s)	350
Bsc4I	CCNNNNNNNGG	1 cut(s)	256
Bse1I	ACTGG	1 cut(s)	293
BseBI	CCWGG	1 cut(s)	336
BseCI	ATCGAT	1 cut(s)	12
BseDI	CCNNGG	1 cut(s)	350
BseGI	GGATG	3 cut(s)	58, 265, 289
BseLI	CCNNNNNNNGG	1 cut(s)	256
BseNI	ACTGG	1 cut(s)	293
BseXI	GCAGC	3 cut(s)	23, 295, 310
BsgI	GTGCAG	2 cut(s)	8, 317
BshVI	ATCGAT	1 cut(s)	12
BsiHKAI	GWGCWC	1 cut(s)	267
BslI	CCNNNNNNNGG	1 cut(s)	256
Bsp1286I	GDGCHC	1 cut(s)	267
Bsp143I	GATC	1 cut(s)	79
BspACI	CCGC	1 cut(s)	287
BspDI	ATCGAT	1 cut(s)	12
BspMI	ACCTGC	2 cut(s)	171, 346
BsrI	ACTGG	1 cut(s)	293
BssECI	CCNNGG	1 cut(s)	350
BssMI	GATC	1 cut(s)	79
BssT1I	CCWWGG	1 cut(s)	350
Bst2UI	CCWGG	1 cut(s)	336
Bst4CI	ACNGT	2 cut(s)	114, 125
Bst6I	CTCTTC	1 cut(s)	36
BstAPI	GCANNNNNTGC	1 cut(s)	295
BstBAI	YACGTR	1 cut(s)	311
BstF5I	GGATG	3 cut(s)	58, 265, 289
BstHHI	GCGC	2 cut(s)	120, 318
BstKTI	GATC	1 cut(s)	82
BstMBI	GATC	1 cut(s)	79
BstMWI	GCNNNNNNNGC	1 cut(s)	295
BstNI	CCWGG	1 cut(s)	336
BstNSI	RCATGY	1 cut(s)	243
BstSCI	CCNGG	1 cut(s)	334
BstV1I	GCAGC	3 cut(s)	23, 295, 310
Bsu15I	ATCGAT	1 cut(s)	12
BsuTUI	ATCGAT	1 cut(s)	12
BtsCI	GGATG	3 cut(s)	58, 265, 289
BtsIMutI	CAGTG	2 cut(s)	119, 300
BveI	ACCTGC	2 cut(s)	171, 346
CfoI	GCGC	2 cut(s)	120, 318
ClaI	ATCGAT	1 cut(s)	12
Csp6I	GTAC	3 cut(s)	46, 308, 359
CspCI	CAANNNNNGTGG	2 cut(s)	158, 193
CviAII	CATG	3 cut(s)	142, 240, 278
CviJI	RGCY	5 cut(s)	36, 101, 286, 301, 349
CviKI_1	RGCY	5 cut(s)	36, 101, 286, 301, 349
CviQI	GTAC	3 cut(s)	46, 308, 359
DpnI	GATC	1 cut(s)	81
DpnII	GATC	1 cut(s)	79
Eam1104I	CTCTTC	1 cut(s)	36
EarI	CTCTTC	1 cut(s)	36
Eco130I	CCWWGG	1 cut(s)	350
EcoRI	GAATTC	1 cut(s)	91
EcoRII	CCWGG	1 cut(s)	334
EcoT14I	CCWWGG	1 cut(s)	350
ErhI	CCWWGG	1 cut(s)	350
FaeI	CATG	3 cut(s)	145, 243, 281
FaiI	YATR	5 cut(s)	143, 192, 241, 272, 279
FatI	CATG	3 cut(s)	141, 239, 277
Fnu4HI	GCNGC	4 cut(s)	37, 284, 287, 299
FokI	GGATG	3 cut(s)	45, 272, 276
Fsp4HI	GCNGC	4 cut(s)	37, 284, 287, 299
GlaI	GCGC	2 cut(s)	119, 317
GluI	GCNGC	4 cut(s)	37, 284, 287, 299
HhaI	GCGC	2 cut(s)	120, 318
Hin1II	CATG	3 cut(s)	145, 243, 281
Hin6I	GCGC	2 cut(s)	118, 316
HinP1I	GCGC	2 cut(s)	118, 316
Hpy99I	CGWCG	1 cut(s)	372
HpyAV	CCTTC	1 cut(s)	152
HpyCH4III	ACNGT	2 cut(s)	114, 125
HpyCH4IV	ACGT	2 cut(s)	310, 370
HpyCH4V	TGCA	6 cut(s)	25, 135, 155, 180, 298, 332
HpyF10VI	GCNNNNNNNGC	1 cut(s)	295
HpySE526I	ACGT	2 cut(s)	310, 370
Hsp92II	CATG	3 cut(s)	145, 243, 281
HspAI	GCGC	2 cut(s)	118, 316
Kzo9I	GATC	1 cut(s)	79
LpnPI	CCDG	7 cut(s)	166, 241, 259, 306, 321, 341, 348
Lsp1109I	GCAGC	3 cut(s)	23, 295, 310
LweI	GCATC	1 cut(s)	298
MaeII	ACGT	2 cut(s)	310, 370
MaeIII	GTNAC	1 cut(s)	164
MalI	GATC	1 cut(s)	81
MboI	GATC	1 cut(s)	79
MboII	GAAGA	3 cut(s)	53, 89, 235
MhlI	GDGCHC	1 cut(s)	267
MluCI	AATT	1 cut(s)	91
MnlI	CCTC	1 cut(s)	78
MspR9I	CCNGG	1 cut(s)	336
MvaI	CCWGG	1 cut(s)	336
MwoI	GCNNNNNNNGC	1 cut(s)	295
NdeII	GATC	1 cut(s)	79
NlaIII	CATG	3 cut(s)	145, 243, 281
NspI	RCATGY	1 cut(s)	243
PaqCI	CACCTGC	1 cut(s)	171
PciI	ACATGT	1 cut(s)	239
PcsI	WCGNNNNNNNCGW	1 cut(s)	367
PkrI	GCNGC	4 cut(s)	38, 285, 288, 300
Ppu21I	YACGTR	1 cut(s)	311
PscI	ACATGT	1 cut(s)	239
Psp6I	CCWGG	1 cut(s)	334
PspGI	CCWGG	1 cut(s)	334
RsaI	GTAC	3 cut(s)	47, 309, 360
RsaNI	GTAC	3 cut(s)	46, 308, 359
SatI	GCNGC	4 cut(s)	37, 284, 287, 299
Sau3AI	GATC	1 cut(s)	79
ScrFI	CCNGG	1 cut(s)	336
SduI	GDGCHC	1 cut(s)	267
SetI	ASST	6 cut(s)	38, 163, 185, 313, 360, 373
SfaNI	GCATC	1 cut(s)	298
Sse9I	AATT	1 cut(s)	91
SsiI	CCGC	1 cut(s)	287
StyD4I	CCNGG	1 cut(s)	334
StyI	CCWWGG	1 cut(s)	350
TaaI	ACNGT	2 cut(s)	114, 125
TaiI	ACGT	2 cut(s)	313, 373
TaqI	TCGA	1 cut(s)	12
TasI	AATT	1 cut(s)	91
TatI	WGTACW	1 cut(s)	45
TauI	GCSGC	1 cut(s)	289
TscAI	CASTG	2 cut(s)	119, 300
TseI	GCWGC	3 cut(s)	36, 283, 298
TspDTI	ATGAA	2 cut(s)	84, 357
TspRI	CASTG	2 cut(s)	119, 300
XapI	RAATTY	1 cut(s)	91
XceI	RCATGY	1 cut(s)	243

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