Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0000370

Physical Location & Seq

Genomic Coordinates Forward (+)

42993599 .. 42994003

Gene Structure 405 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG360600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 405 bp

ATGGGTAATGAGTTGGAGGACATCTTCAGGCTTATGGAATGTACTGATGCACATAAAGTCACTTGCGCAATTTACATGTTGAAGAAAGATGCTAGGCATTGGTGGGATACCATGCGAAGAGCCCACAATATTGATGTGAATCCTGTTAGTTGGACGAGATTCAAGGAGTTATTTTATGATAAGTATTTCCCTGAGCCATTGAGAGCAGACAAGGAATCTGAGTTTTTGTTGTTGAAAATGGAATCAATGCCTTACCCAGAGTATGAGAAGAAGTTTGAGTCACTACCAAGGCTTGCTCCACATCTTGTGGATACTAAGGAGCGCAAAGCAAGGAGGTTTGTGCAAGGTCTTAGGTCAGATATCAGGAGAGCTGTGGAAGTCCTTGATTTGCATATATACGCATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000943 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0003887 GO:0003964 GO:0004518 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006278 GO:0006508 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008233 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0016787 GO:0016788 GO:0018130 GO:0019438 GO:0019538 GO:0032196 GO:0032197 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0071897 GO:0090304 GO:0090305 GO:0090501 GO:0097159 GO:0140096 GO:0140097 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901564 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RVP_2 RVT_1 Retrotrans_gag rve zf-CCHC

Protein Analysis

134

Amino Acids

16.22

Weight (kDa)

7.79

Isoelectric Point (pI)

64.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Retrotrans_gag	PF03732	23 - 118	1.6e-15	Retrotransposon gag protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0000370)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g29481 FvH4_2g11454 FvH4_3g19661 FvH4_3g28463 FvH4_3g31691 FvH4_3g34551 FvH4_3g35241 FvH4_4g06575 FvH4_4g09082 FvH4_4g15804 FvH4_4g15805 FvH4_4g16178 FvH4_4g16282 FvH4_5g25163 FvH4_6g27413 FvH4_7g02962 FvH4_7g04361
malus_domestica	MD01G1095000.v1.1 MD02G1270200.v1.1 MD02G1270300.v1.1 MD02G1270400.v1.1 MD06G1059100.v1.1 MD08G1226500.v1.1
prunus_persica	Prupe.1G169500_v2.0.a1 Prupe.5G195800_v2.0.a1
pyrus_communis	pycom01g00010 pycom01g00770 pycom02g23140 pycom03g11760 pycom04g06090 pycom05g06900 pycom05g08070 pycom05g14500 pycom06g03050 pycom07g06250 pycom07g07540 pycom07g10580 pycom08g04990 pycom1146g00060 pycom11g01080 pycom11g15270 pycom11g15460 pycom11g24900 pycom12419g00150 pycom12424g00120 pycom13g08740 pycom13g24950 pycom13g25960 pycom13g26030 pycom13g27820 pycom16g23270 pycom16g25020 pycom16g25960 pycom17g07780 pycom17g08210 pycom17g13100
rosa_chinensis	RchiOBHm_Chr1g0329421 RchiOBHm_Chr4g0397711 RchiOBHm_Chr4g0403481 RchiOBHm_Chr5g0019091 RchiOBHm_Chr5g0049101
rosa_laevigata	RLG00000029892
rosa_multiflora	Rmu_sc0001866.1_g000007
rosa_roxburghii	Rroxscaffold_2G00094160 Rroxscaffold_3G00229110 Rroxscaffold_4G00321100 Rroxscaffold_7G00196040 Rroxscaffold_7G00196280
rosa_rugosa	Rorug05G0160500 Rorug06G0096500
rosa_samantha	Rh1AG098600 Rh1AG098800 Rh1BG078200 Rh1BG078700 Rh1BG178500 Rh1CG094600 Rh1CG094900 Rh1DG101700 Rh1DG109600 Rh2AG175800 Rh2AG175900 Rh2AG511400 Rh2BG114700 Rh2CG042200 Rh2CG116600 Rh2CG317500 Rh2DG327700 Rh2DG337800 Rh4CG142700 Rh4DG113100 Rh5BG335800 Rh5CG360600 Rh5DG352000 Rh6BG071400 Rh6BG417100 Rh6CG463300 Rh6CG463400 Rh7BG186600 Rh7CG196500 Rh7CG196600 Rh7CG448900 Rh7DG228300
rosa_wichuraiana	Rw4G006560 Rw4G017340 Rw5G030450

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	67
AcuI	CTGAAG	1 cut(s)	10
AfaI	GTAC	1 cut(s)	43
AflIII	ACRYGT	1 cut(s)	75
AgsI	TTSAA	3 cut(s)	82, 163, 235
AluBI	AGCT	1 cut(s)	371
AluI	AGCT	1 cut(s)	371
AspLEI	GCGC	2 cut(s)	68, 324
BanII	GRGCYC	1 cut(s)	124
BciVI	GTATCC	2 cut(s)	100, 304
BfaI	CTAG	1 cut(s)	93
BfuI	GTATCC	2 cut(s)	100, 304
BmsI	GCATC	2 cut(s)	37, 79
Bpu10I	CCTNAGC	1 cut(s)	192
BsaBI	GATNNNNATC	1 cut(s)	138
BsaJI	CCNNGG	1 cut(s)	287
Bse8I	GATNNNNATC	1 cut(s)	138
BseDI	CCNNGG	1 cut(s)	287
BseJI	GATNNNNATC	1 cut(s)	138
BseMII	CTCAG	2 cut(s)	183, 210
Bsp1286I	GDGCHC	1 cut(s)	124
BspCNI	CTCAG	2 cut(s)	184, 211
BspQI	GCTCTTC	1 cut(s)	112
BssECI	CCNNGG	1 cut(s)	287
BssT1I	CCWWGG	1 cut(s)	287
Bst6I	CTCTTC	1 cut(s)	112
BstC8I	GCNNGC	1 cut(s)	294
BstDEI	CTNAG	4 cut(s)	192, 219, 315, 350
BstHHI	GCGC	2 cut(s)	68, 324
BstNSI	RCATGY	1 cut(s)	79
BsuI	GTATCC	2 cut(s)	100, 304
Cac8I	GCNNGC	1 cut(s)	294
CfoI	GCGC	2 cut(s)	68, 324
Csp6I	GTAC	1 cut(s)	42
CviAII	CATG	2 cut(s)	76, 112
CviJI	RGCY	5 cut(s)	31, 122, 196, 292, 371
CviKI_1	RGCY	5 cut(s)	31, 122, 196, 292, 371
CviQI	GTAC	1 cut(s)	42
DdeI	CTNAG	4 cut(s)	192, 219, 315, 350
Eam1104I	CTCTTC	1 cut(s)	112
EarI	CTCTTC	1 cut(s)	112
Eco130I	CCWWGG	1 cut(s)	287
Eco24I	GRGCYC	1 cut(s)	124
Eco32I	GATATC	1 cut(s)	361
Eco57I	CTGAAG	1 cut(s)	10
EcoRV	GATATC	1 cut(s)	361
EcoT14I	CCWWGG	1 cut(s)	287
EcoT38I	GRGCYC	1 cut(s)	124
ErhI	CCWWGG	1 cut(s)	287
FaeI	CATG	2 cut(s)	79, 115
FatI	CATG	2 cut(s)	75, 111
FriOI	GRGCYC	1 cut(s)	124
FspBI	CTAG	1 cut(s)	93
FspI	TGCGCA	1 cut(s)	67
GlaI	GCGC	2 cut(s)	67, 323
HhaI	GCGC	2 cut(s)	68, 324
Hin1II	CATG	2 cut(s)	79, 115
Hin6I	GCGC	2 cut(s)	66, 322
HinP1I	GCGC	2 cut(s)	66, 322
HinfI	GANTC	5 cut(s)	139, 159, 215, 242, 278
Hpy188I	TCNGA	2 cut(s)	220, 358
Hpy188III	TCNNGA	1 cut(s)	364
HpyCH4V	TGCA	3 cut(s)	50, 343, 391
HpyF3I	CTNAG	4 cut(s)	192, 219, 315, 350
Hsp92II	CATG	2 cut(s)	79, 115
HspAI	GCGC	2 cut(s)	66, 322
LguI	GCTCTTC	1 cut(s)	112
LmnI	GCTCC	2 cut(s)	301, 319
LpnPI	CCDG	5 cut(s)	13, 156, 204, 270, 349
LweI	GCATC	2 cut(s)	37, 79
MaeI	CTAG	1 cut(s)	93
MaeIII	GTNAC	2 cut(s)	58, 279
MboII	GAAGA	4 cut(s)	16, 94, 129, 280
MhlI	GDGCHC	1 cut(s)	124
MluCI	AATT	1 cut(s)	69
MlyI	GAGTC	1 cut(s)	287
MmeI	TCCRAC	1 cut(s)	131
MnlI	CCTC	2 cut(s)	10, 327
NlaIII	CATG	2 cut(s)	79, 115
NmuCI	GTSAC	2 cut(s)	58, 279
NsbI	TGCGCA	1 cut(s)	67
NspI	RCATGY	1 cut(s)	79
PciI	ACATGT	1 cut(s)	75
PciSI	GCTCTTC	1 cut(s)	112
PfeI	GAWTC	4 cut(s)	139, 159, 215, 242
PleI	GAGTC	1 cut(s)	286
PpsI	GAGTC	1 cut(s)	286
PscI	ACATGT	1 cut(s)	75
RsaI	GTAC	1 cut(s)	43
RsaNI	GTAC	1 cut(s)	42
SapI	GCTCTTC	1 cut(s)	112
SchI	GAGTC	1 cut(s)	287
SduI	GDGCHC	1 cut(s)	124
SetI	ASST	4 cut(s)	338, 349, 356, 373
SfaNI	GCATC	2 cut(s)	37, 79
Sse9I	AATT	1 cut(s)	69
SspI	AATATT	1 cut(s)	130
SspMI	CTAG	1 cut(s)	93
StyI	CCWWGG	1 cut(s)	287
TasI	AATT	1 cut(s)	69
TatI	WGTACW	1 cut(s)	41
TfiI	GAWTC	4 cut(s)	139, 159, 215, 242
TseFI	GTSAC	2 cut(s)	58, 279
Tsp45I	GTSAC	2 cut(s)	58, 279
XceI	RCATGY	1 cut(s)	79
XspI	CTAG	1 cut(s)	93

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