Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0000593

Physical Location & Seq

Genomic Coordinates Forward (+)

43020218 .. 43020819

Gene Structure 602 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG221000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 381 bp

ATGCGTGCCTCTTATGCCCGTGGAAGTTACTTGAATTTTCCATTTGACTTTGCCAAGAGATATCTTAGGAAGCAGCCTAGTAACGTCACTTTTCTGGCCGATGGTGTATCTTGGCCTGTCAAGTTCCATTATCCCCAAAACCAAACCAGAGCAATGGCTGGCTGGTCTGCATTTGCGCGAGTCAATAAATTGAAAGAGAGTGATGTGTGTGTCTTTGTGTTGACTGACGACATCAAATTTGTATTTAGTGTTGCGATTTTCCGCATCACAGGTGCTGCAAATTGCACCTTACCATCACCAGGACGAAGGCAAACTGCCACGGCTCAATTGAAATTGAAAAACAACAAGAGAAAGCCGGATAGAAGAAGTAACAGAATCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006950 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009909 GO:0010048 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048580 GO:0048831 GO:0050789 GO:0050793 GO:0050896 GO:0051239 GO:0065007 GO:0070013 GO:0097159 GO:1901363 GO:2000026 GO:2000241

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Protein Analysis

126

Amino Acids

14.44

Weight (kDa)

10.83

Isoelectric Point (pI)

52.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	6 - 88	5.9e-12	B3 DNA binding domain

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: OG0000593)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_1g14620 FvH4_1g14630 FvH4_1g14630 FvH4_1g14640 FvH4_1g23530 FvH4_2g13150 FvH4_5g14275 FvH4_5g14275 FvH4_5g14275 FvH4_5g14275 FvH4_5g14275 FvH4_5g14275 FvH4_5g14275 FvH4_5g14275 FvH4_5g14275 FvH4_5g19930 FvH4_5g19930 FvH4_7g04060 FvH4_7g04060
malus_domestica	MD15G1273900.v1.1
prunus_persica	Prupe.7G144000_v2.0.a1 Prupe.7G144100_v2.0.a1 Prupe.7G144100_v2.0.a1 Prupe.7G144200_v2.0.a1
pyrus_communis	pycom02g12600 pycom15g23740
rosa_chinensis	RchiOBHm_Chr1g0350161 RchiOBHm_Chr2g0103391 RchiOBHm_Chr2g0103401 RchiOBHm_Chr2g0103411 RchiOBHm_Chr2g0118951
rosa_laevigata	RLG00000013545 RLG00000017233 RLG00000017234 RLG00000018437 RLG00000028501
rosa_multiflora	Rmu_sc0000165.1_g000005 Rmu_sc0002434.1_g000007 Rmu_sc0002560.1_g000015 Rmu_sc0021123.1_g000001
rosa_roxburghii	Rroxscaffold_2G00124370 Rroxscaffold_2G00124550 Rroxscaffold_2G00139650 Rroxscaffold_2G00139660 Rroxscaffold_4G00305040 Rroxscaffold_7G00194250
rosa_rugosa	Rorug01G0208600 Rorug01G0208700 Rorug01G0208800 Rorug01G0208800 Rorug01G0208900 Rorug02G0114700 Rorug02G0114800 Rorug02G0219900 Rorug02G0220000 Rorug06G0081400 Rorug06G0081500
rosa_samantha	Rh1AG224800 Rh1DG220900 Rh1DG221000 Rh2AG162900 Rh2AG163000 Rh2AG163100 Rh2AG277000 Rh2BG170000 Rh2BG170100 Rh2BG170200 Rh2BG288900 Rh2CG170100 Rh2DG284100 Rh2DG303000 Rh6AG197500 Rh6BG201300 Rh6CG202100
rosa_wichuraiana	Rw1G019210 Rw1G019320 Rw2G012800 Rw2G012810 Rw2G012820 Rw2G022060 Rw6G017210

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	178
AciI	CCGC	1 cut(s)	262
AcoI	YGGCCR	1 cut(s)	96
AcsI	RAATTY	2 cut(s)	34, 236
AfiI	CCNNNNNNNGG	1 cut(s)	299
AgsI	TTSAA	4 cut(s)	34, 193, 331, 337
AjnI	CCWGG	1 cut(s)	298
AlwNI	CAGNNNCTG	2 cut(s)	275, 378
AoxI	GGCC	2 cut(s)	96, 113
ApeKI	GCWGC	2 cut(s)	73, 275
ApoI	RAATTY	2 cut(s)	34, 236
ArsI	GACNNNNNNTTYG	2 cut(s)	221, 253
AspLEI	GCGC	1 cut(s)	178
AsuHPI	GGTGA	1 cut(s)	288
BbvI	GCAGC	2 cut(s)	85, 262
BccI	CCATC	2 cut(s)	95, 301
BceAI	ACGGC	1 cut(s)	336
BciT130I	CCWGG	1 cut(s)	300
BfaI	CTAG	1 cut(s)	78
BisI	GCNGC	2 cut(s)	74, 276
BlsI	GCNGC	2 cut(s)	75, 277
Bme1390I	CCNGG	1 cut(s)	300
BmrFI	CCNGG	1 cut(s)	300
BmsI	GCATC	1 cut(s)	273
BsaJI	CCNNGG	2 cut(s)	19, 318
Bsc4I	CCNNNNNNNGG	1 cut(s)	299
Bse3DI	GCAATG	1 cut(s)	159
BseBI	CCWGG	1 cut(s)	300
BseDI	CCNNGG	2 cut(s)	19, 318
BseLI	CCNNNNNNNGG	1 cut(s)	299
BseMI	GCAATG	1 cut(s)	159
BseXI	GCAGC	2 cut(s)	85, 262
Bsh1236I	CGCG	1 cut(s)	178
BshFI	GGCC	2 cut(s)	98, 115
BsiSI	CCGG	1 cut(s)	356
BslI	CCNNNNNNNGG	1 cut(s)	299
BsnI	GGCC	2 cut(s)	98, 115
BspACI	CCGC	1 cut(s)	262
BspANI	GGCC	2 cut(s)	98, 115
BspFNI	CGCG	1 cut(s)	178
BsrDI	GCAATG	1 cut(s)	159
BssECI	CCNNGG	2 cut(s)	19, 318
Bst2UI	CCWGG	1 cut(s)	300
BstC8I	GCNNGC	2 cut(s)	6, 160
BstDEI	CTNAG	1 cut(s)	65
BstDSI	CCRYGG	2 cut(s)	19, 318
BstFNI	CGCG	1 cut(s)	178
BstHHI	GCGC	1 cut(s)	178
BstMWI	GCNNNNNNNGC	1 cut(s)	14
BstNI	CCWGG	1 cut(s)	300
BstSCI	CCNGG	1 cut(s)	298
BstUI	CGCG	1 cut(s)	178
BstV1I	GCAGC	2 cut(s)	85, 262
BstXI	CCANNNNNNTGG	1 cut(s)	154
BsuRI	GGCC	2 cut(s)	98, 115
BtgI	CCRYGG	2 cut(s)	19, 318
Cac8I	GCNNGC	2 cut(s)	6, 160
CaiI	CAGNNNCTG	2 cut(s)	275, 378
CfoI	GCGC	1 cut(s)	178
CviJI	RGCY	7 cut(s)	76, 98, 115, 158, 162, 323, 355
CviKI_1	RGCY	7 cut(s)	76, 98, 115, 158, 162, 323, 355
DdeI	CTNAG	1 cut(s)	65
EaeI	YGGCCR	1 cut(s)	96
Eco32I	GATATC	1 cut(s)	62
EcoRII	CCWGG	1 cut(s)	298
EcoRV	GATATC	1 cut(s)	62
FaiI	YATR	1 cut(s)	15
Fnu4HI	GCNGC	2 cut(s)	74, 276
Fsp4HI	GCNGC	2 cut(s)	74, 276
FspBI	CTAG	1 cut(s)	78
GlaI	GCGC	1 cut(s)	177
GluI	GCNGC	2 cut(s)	74, 276
HaeIII	GGCC	2 cut(s)	98, 115
HapII	CCGG	1 cut(s)	356
HhaI	GCGC	1 cut(s)	178
Hin6I	GCGC	1 cut(s)	176
HinP1I	GCGC	1 cut(s)	176
HincII	GTYRAC	1 cut(s)	222
HindII	GTYRAC	1 cut(s)	222
HinfI	GANTC	2 cut(s)	180, 375
HpaII	CCGG	1 cut(s)	356
HphI	GGTGA	1 cut(s)	288
Hpy166II	GTNNAC	1 cut(s)	222
Hpy188I	TCNGA	1 cut(s)	380
Hpy8I	GTNNAC	1 cut(s)	222
HpyAV	CCTTC	1 cut(s)	300
HpyCH4IV	ACGT	1 cut(s)	84
HpyCH4V	TGCA	3 cut(s)	170, 278, 285
HpyF10VI	GCNNNNNNNGC	1 cut(s)	14
HpyF3I	CTNAG	1 cut(s)	65
HpySE526I	ACGT	1 cut(s)	84
HspAI	GCGC	1 cut(s)	176
LpnPI	CCDG	9 cut(s)	80, 129, 144, 148, 160, 255, 285, 312, 369
Lsp1109I	GCAGC	2 cut(s)	85, 262
LweI	GCATC	1 cut(s)	273
MaeI	CTAG	1 cut(s)	78
MaeII	ACGT	1 cut(s)	84
MaeIII	GTNAC	4 cut(s)	26, 80, 85, 368
MboII	GAAGA	1 cut(s)	375
MfeI	CAATTG	1 cut(s)	326
MluCI	AATT	6 cut(s)	34, 188, 236, 280, 326, 332
MlyI	GAGTC	1 cut(s)	189
MnlI	CCTC	1 cut(s)	19
MspI	CCGG	1 cut(s)	356
MspR9I	CCNGG	1 cut(s)	300
MunI	CAATTG	1 cut(s)	326
MvaI	CCWGG	1 cut(s)	300
MvnI	CGCG	1 cut(s)	178
MwoI	GCNNNNNNNGC	1 cut(s)	14
NmuCI	GTSAC	1 cut(s)	85
PfeI	GAWTC	1 cut(s)	375
PkrI	GCNGC	2 cut(s)	75, 277
PleI	GAGTC	1 cut(s)	188
PpsI	GAGTC	1 cut(s)	188
Psp6I	CCWGG	1 cut(s)	298
PspGI	CCWGG	1 cut(s)	298
PstNI	CAGNNNCTG	2 cut(s)	275, 378
SatI	GCNGC	2 cut(s)	74, 276
SchI	GAGTC	1 cut(s)	189
ScrFI	CCNGG	1 cut(s)	300
SetI	ASST	3 cut(s)	87, 274, 290
SfaNI	GCATC	1 cut(s)	273
Sse9I	AATT	6 cut(s)	34, 188, 236, 280, 326, 332
SsiI	CCGC	1 cut(s)	262
SspMI	CTAG	1 cut(s)	78
StyD4I	CCNGG	1 cut(s)	298
TaiI	ACGT	1 cut(s)	87
TasI	AATT	6 cut(s)	34, 188, 236, 280, 326, 332
TfiI	GAWTC	1 cut(s)	375
TseFI	GTSAC	1 cut(s)	85
TseI	GCWGC	2 cut(s)	73, 275
Tsp45I	GTSAC	1 cut(s)	85
XapI	RAATTY	2 cut(s)	34, 236
XspI	CTAG	1 cut(s)	78

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