Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0000274

Physical Location & Seq

Genomic Coordinates Forward (+)

9615412 .. 9616089

Gene Structure 678 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG116900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 225 bp

ATGGAGATGGTGAGCTCTAAATCGGAGACCACCGGAGAGAGTATTTCTTATGATTTCTGCAATGAGCAGCCGGAGATGTTCGATGGGTGCCCAAAGGATGTCCCAGTGGCGCTCATAAGCTTTCGCAATTATAGCCTTGATGCCAAAATCAAGACCAACATAGAGGCAAACAACAAGTTTGAATTTGATATTCCAAATTTGAGTAAAGTAGCAAACGCTCTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000741 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006996 GO:0006997 GO:0007275 GO:0008150 GO:0009553 GO:0009559 GO:0009561 GO:0009889 GO:0009987 GO:0010197 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048229 GO:0048284 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071840 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko03410 ko04140 ko04217 map03410 map04140 map04217

Pfam Domains

Protein Families

HMG_box

Protein Analysis

74

Amino Acids

8.28

Weight (kDa)

4.45

Isoelectric Point (pI)

47.27

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000274)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g06730 FvH4_3g06731 FvH4_3g17150 FvH4_3g24490 FvH4_3g24741 FvH4_3g25201 FvH4_3g29860 FvH4_3g33300 FvH4_3g33780 FvH4_4g04830 FvH4_4g04901 FvH4_4g04910 FvH4_4g09190 FvH4_4g09870 FvH4_4g09880 FvH4_4g10501 FvH4_4g10502 FvH4_4g16800 FvH4_4g16810 FvH4_5g33260 FvH4_6g06051 FvH4_6g06060 FvH4_6g06060 FvH4_6g22011 FvH4_6g34230 FvH4_6g34231 FvH4_6g36690 FvH4_6g36710 FvH4_6g36720 FvH4_6g36740 FvH4_6g36750 FvH4_6g39110 FvH4_7g04250 FvH4_7g04250 FvH4_7g04380 FvH4_7g04390 FvH4_7g09690 FvH4_7g32810 FvH4_7g32820
pyrus_communis	pycom02g10120
rosa_chinensis	RchiOBHm_Chr0c39g0503121 RchiOBHm_Chr1g0327221 RchiOBHm_Chr1g0358931 RchiOBHm_Chr1g0358941 RchiOBHm_Chr3g0467921 RchiOBHm_Chr4g0402241 RchiOBHm_Chr6g0280581 RchiOBHm_Chr6g0298971 RchiOBHm_Chr7g0226761 RchiOBHm_Chr7g0226841 RchiOBHm_Chr7g0238631 RchiOBHm_Chr7g0243901
rosa_laevigata	RLG00000015279 RLG00000029539
rosa_multiflora	Rmu_co8451743.1_g000001 Rmu_sc0000270.1_g000001 Rmu_sc0000532.1_g000016 Rmu_sc0000885.1_g000002 Rmu_sc0001913.1_g000026 Rmu_sc0002080.1_g000032 Rmu_sc0002202.1_g000003 Rmu_sc0002202.1_g000006 Rmu_sc0005023.1_g000028 Rmu_sc0006388.1_g000017 Rmu_sc0011497.1_g000007 Rmu_sc0019088.1_g000001 Rmu_ssc0000064.1_g000017 Rmu_ssc0000170.1_g000013
rosa_roxburghii	Rroxscaffold_1G00003820 Rroxscaffold_1G00015970 Rroxscaffold_1G00020360 Rroxscaffold_1G00064040 Rroxscaffold_1G00064120 Rroxscaffold_2G00086010 Rroxscaffold_2G00086020 Rroxscaffold_2G00095500 Rroxscaffold_2G00095510 Rroxscaffold_2G00102440 Rroxscaffold_2G00102970 Rroxscaffold_3G00231570 Rroxscaffold_3G00231830 Rroxscaffold_3G00250710 Rroxscaffold_3G00259420 Rroxscaffold_4G00277040 Rroxscaffold_4G00289320 Rroxscaffold_4G00289330 Rroxscaffold_4G00300150 Rroxscaffold_4G00328410 Rroxscaffold_5G00339120 Rroxscaffold_5G00349810 Rroxscaffold_5G00353990 Rroxscaffold_5G00366720 Rroxscaffold_5G00371400 Rroxscaffold_6G00411690 Rroxscaffold_6G00422190 Rroxscaffold_7G00157730 Rroxscaffold_7G00194130 Rroxscaffold_7G00196760 Rroxscaffold_7G00196770 Rroxscaffold_7G00208770
rosa_rugosa	Rorug01G0230300 Rorug01G0261600 Rorug01G0360700 Rorug01G0489500 Rorug02G0176000 Rorug02G0337500 Rorug02G0570100 Rorug03G0270700 Rorug04G0114700 Rorug04G0130400 Rorug05G0073400 Rorug05G0565300 Rorug05G0565300
rosa_samantha	Rh2BG158000 Rh2DG158000 Rh3AG113900 Rh3BG116900 Rh3CG119800 Rh3DG118800 Rh4BG396700 Rh5BG187400 Rh5BG211200 Rh7AG238800 Rh7AG300700 Rh7BG277000 Rh7CG068900 Rh7CG319200 Rh7CG472000 Rh7DG244600 Rh7DG475400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	87
AcsI	RAATTY	2 cut(s)	182, 196
AgsI	TTSAA	1 cut(s)	182
AluBI	AGCT	2 cut(s)	15, 120
AluI	AGCT	2 cut(s)	15, 120
Alw21I	GWGCWC	1 cut(s)	17
Alw26I	GTCTC	1 cut(s)	20
ApeKI	GCWGC	1 cut(s)	67
ApoI	RAATTY	2 cut(s)	182, 196
AspLEI	GCGC	1 cut(s)	112
AsuHPI	GGTGA	1 cut(s)	22
BaeGI	GKGCMC	1 cut(s)	92
BanI	GGYRCC	1 cut(s)	87
BanII	GRGCYC	1 cut(s)	17
Bbv12I	GWGCWC	1 cut(s)	17
BbvI	GCAGC	1 cut(s)	79
BccI	CCATC	1 cut(s)	77
BcoDI	GTCTC	1 cut(s)	20
BfoI	RGCGCY	1 cut(s)	113
BisI	GCNGC	1 cut(s)	68
BlsI	GCNGC	1 cut(s)	69
BmiI	GGNNCC	1 cut(s)	89
BmrI	ACTGGG	1 cut(s)	98
BmsI	GCATC	1 cut(s)	130
BmuI	ACTGGG	1 cut(s)	98
BsaI	GGTCTC	1 cut(s)	20
BsaWI	WCCGGW	1 cut(s)	32
Bse1I	ACTGG	1 cut(s)	104
Bse3DI	GCAATG	1 cut(s)	67
BseGI	GGATG	1 cut(s)	103
BseMI	GCAATG	1 cut(s)	67
BseNI	ACTGG	1 cut(s)	104
BseSI	GKGCMC	1 cut(s)	92
BseXI	GCAGC	1 cut(s)	79
BshNI	GGYRCC	1 cut(s)	87
BsiHKAI	GWGCWC	1 cut(s)	17
BsiSI	CCGG	2 cut(s)	33, 71
BslFI	GGGAC	1 cut(s)	86
BsmAI	GTCTC	1 cut(s)	20
BsmFI	GGGAC	1 cut(s)	86
Bso31I	GGTCTC	1 cut(s)	20
Bsp1286I	GDGCHC	2 cut(s)	17, 92
BspLI	GGNNCC	1 cut(s)	89
BspT107I	GGYRCC	1 cut(s)	87
BspTNI	GGTCTC	1 cut(s)	20
BsrDI	GCAATG	1 cut(s)	67
BsrI	ACTGG	1 cut(s)	104
BstF5I	GGATG	1 cut(s)	103
BstH2I	RGCGCY	1 cut(s)	113
BstHHI	GCGC	1 cut(s)	112
BstMAI	GTCTC	1 cut(s)	20
BstMWI	GCNNNNNNNGC	1 cut(s)	132
BstSLI	GKGCMC	1 cut(s)	92
BstV1I	GCAGC	1 cut(s)	79
BtsCI	GGATG	1 cut(s)	103
BtsIMutI	CAGTG	1 cut(s)	111
CfoI	GCGC	1 cut(s)	112
CviJI	RGCY	4 cut(s)	15, 70, 120, 135
CviKI_1	RGCY	4 cut(s)	15, 70, 120, 135
Ecl136II	GAGCTC	1 cut(s)	15
Eco24I	GRGCYC	1 cut(s)	17
Eco31I	GGTCTC	1 cut(s)	20
Eco53kI	GAGCTC	1 cut(s)	15
EcoICRI	GAGCTC	1 cut(s)	15
EcoT38I	GRGCYC	1 cut(s)	17
FaiI	YATR	4 cut(s)	51, 116, 132, 161
FaqI	GGGAC	1 cut(s)	86
Fnu4HI	GCNGC	1 cut(s)	68
FokI	GGATG	1 cut(s)	110
FriOI	GRGCYC	1 cut(s)	17
Fsp4HI	GCNGC	1 cut(s)	68
GlaI	GCGC	1 cut(s)	111
GluI	GCNGC	1 cut(s)	68
HaeII	RGCGCY	1 cut(s)	113
HapII	CCGG	2 cut(s)	33, 71
HhaI	GCGC	1 cut(s)	112
Hin6I	GCGC	1 cut(s)	110
HinP1I	GCGC	1 cut(s)	110
HindIII	AAGCTT	1 cut(s)	118
HpaII	CCGG	2 cut(s)	33, 71
HphI	GGTGA	1 cut(s)	22
Hpy188I	TCNGA	1 cut(s)	25
Hpy188III	TCNNGA	1 cut(s)	151
HpyCH4V	TGCA	1 cut(s)	60
HpyF10VI	GCNNNNNNNGC	1 cut(s)	132
HspAI	GCGC	1 cut(s)	110
LpnPI	CCDG	3 cut(s)	46, 84, 117
Lsp1109I	GCAGC	1 cut(s)	79
LweI	GCATC	1 cut(s)	130
MhlI	GDGCHC	2 cut(s)	17, 92
MluCI	AATT	3 cut(s)	127, 182, 196
MnlI	CCTC	1 cut(s)	157
MspI	CCGG	2 cut(s)	33, 71
MwoI	GCNNNNNNNGC	1 cut(s)	132
NlaIV	GGNNCC	1 cut(s)	89
PkrI	GCNGC	1 cut(s)	69
Psp124BI	GAGCTC	1 cut(s)	17
PspN4I	GGNNCC	1 cut(s)	89
SacI	GAGCTC	1 cut(s)	17
SatI	GCNGC	1 cut(s)	68
SduI	GDGCHC	2 cut(s)	17, 92
SetI	ASST	2 cut(s)	17, 122
SfaNI	GCATC	1 cut(s)	130
SgeI	CNNG	6 cut(s)	45, 83, 116, 149, 163, 187
Sse9I	AATT	3 cut(s)	127, 182, 196
SstI	GAGCTC	1 cut(s)	17
TaqI	TCGA	1 cut(s)	81
TasI	AATT	3 cut(s)	127, 182, 196
TscAI	CASTG	1 cut(s)	111
TseI	GCWGC	1 cut(s)	67
TspRI	CASTG	1 cut(s)	111
XapI	RAATTY	2 cut(s)	182, 196

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