Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0003692

Physical Location & Seq

Genomic Coordinates Forward (+)

83032544 .. 83033191

Gene Structure 648 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG486300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 204 bp

ATGGCGTCGACAACCAGAGCTGCTCCTATTAAACAGCATACTGTTCAAGAATATCTGATGGACGCTGCTCAAAAAGGATTTGCAATTGATTGGGTCAGATTGTGCAATGAGGTTGGACTGACACAAAAGGTTTTCTCAGATATTCAGTGTGCCATTTCAAAGGCTGGCTCTAGAGAAAAGTTATCGCCTATCAAAATGAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000018 GO:0000217 GO:0000287 GO:0000400 GO:0000403 GO:0000405 GO:0000723 GO:0000724 GO:0000725 GO:0000731 GO:0000781 GO:0001302 GO:0003674 GO:0003676 GO:0003677 GO:0003678 GO:0003682 GO:0003684 GO:0003824 GO:0004003 GO:0004386 GO:0004518 GO:0004527 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005657 GO:0005694 GO:0005730 GO:0005737 GO:0005813 GO:0005815 GO:0005856 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006281 GO:0006284 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006979 GO:0006996 GO:0007154 GO:0007275 GO:0007568 GO:0007569 GO:0008026 GO:0008094 GO:0008104 GO:0008150 GO:0008152 GO:0008408 GO:0009058 GO:0009059 GO:0009267 GO:0009314 GO:0009378 GO:0009411 GO:0009416 GO:0009605 GO:0009628 GO:0009893 GO:0009987 GO:0009991 GO:0010212 GO:0010225 GO:0010259 GO:0010332 GO:0010604 GO:0010941 GO:0015630 GO:0016043 GO:0016462 GO:0016604 GO:0016607 GO:0016787 GO:0016788 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030145 GO:0031297 GO:0031323 GO:0031325 GO:0031667 GO:0031668 GO:0031669 GO:0031974 GO:0031981 GO:0032200 GO:0032356 GO:0032357 GO:0032392 GO:0032501 GO:0032502 GO:0032508 GO:0033036 GO:0033365 GO:0033554 GO:0034504 GO:0034613 GO:0034641 GO:0034645 GO:0034654 GO:0040008 GO:0040009 GO:0042592 GO:0042594 GO:0042623 GO:0042802 GO:0042803 GO:0042981 GO:0042995 GO:0043005 GO:0043067 GO:0043085 GO:0043138 GO:0043140 GO:0043167 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044430 GO:0044446 GO:0044451 GO:0044464 GO:0044806 GO:0044877 GO:0045005 GO:0045911 GO:0045935 GO:0046483 GO:0046872 GO:0046914 GO:0046983 GO:0048518 GO:0048522 GO:0048856 GO:0048869 GO:0050789 GO:0050790 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051171 GO:0051173 GO:0051179 GO:0051276 GO:0051336 GO:0051345 GO:0051641 GO:0051716 GO:0051880 GO:0060249 GO:0060255 GO:0060542 GO:0061749 GO:0061820 GO:0061821 GO:0062037 GO:0065007 GO:0065008 GO:0065009 GO:0070013 GO:0070035 GO:0070336 GO:0070337 GO:0070727 GO:0071103 GO:0071214 GO:0071478 GO:0071479 GO:0071480 GO:0071496 GO:0071704 GO:0071840 GO:0071897 GO:0080090 GO:0090304 GO:0090305 GO:0090657 GO:0097159 GO:0097458 GO:0098530 GO:0098687 GO:0104004 GO:0120025 GO:0140097 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902570 GO:1905773

KEGG Pathways

Metabolic & Signaling

ko03018 map03018

Pfam Domains

Protein Families

DEAD HRDC HTH_40 Helicase_C RQC RecQ_Zn_bind

Protein Analysis

67

Amino Acids

7.43

Weight (kDa)

9.14

Isoelectric Point (pI)

23.02

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HTH_40	PF14493	8 - 66	9.6e-07	Helix-turn-helix domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0003692)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g41250 FvH4_3g41250 FvH4_3g41250
malus_domestica	MD03G1046200.v1.1 MD11G1048500.v1.1
prunus_persica	Prupe.6G037500_v2.0.a1
pyrus_communis	pycom03g03640
rosa_chinensis	RchiOBHm_Chr5g0074051 RchiOBHm_Chr5g0074061
rosa_laevigata	RLG00000036442 RLG00000036447
rosa_multiflora	Rmu_co8312713.1_g000001 Rmu_sc0004053.1_g000009 Rmu_sc0011497.1_g000014 Rmu_sc0015038.1_g000001 Rmu_sc0036241.1_g000003
rosa_roxburghii	Rroxscaffold_1G00007340 Rroxscaffold_1G00007350 Rroxscaffold_4G00327760
rosa_rugosa	Rorug05G0428500 Rorug05G0428500 Rorug05G0428600 Rorug05G0428700 Rorug05G0428800
rosa_samantha	Rh5AG485900 Rh5AG486300 Rh5AG486500 Rh5BG506100 Rh5BG506800 Rh5CG529800 Rh5CG530300 Rh5DG518800
rosa_wichuraiana	Rw5G045100 Rw5G045130 Rw5G045150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	8
AcyI	GRCGYC	1 cut(s)	5
AgsI	TTSAA	2 cut(s)	47, 159
AluBI	AGCT	1 cut(s)	20
AluI	AGCT	1 cut(s)	20
ApeKI	GCWGC	2 cut(s)	20, 65
BbvI	GCAGC	2 cut(s)	7, 52
BccI	CCATC	1 cut(s)	52
BfaI	CTAG	1 cut(s)	171
BisI	GCNGC	2 cut(s)	21, 66
BlsI	GCNGC	2 cut(s)	22, 67
BsaHI	GRCGYC	1 cut(s)	5
Bse3DI	GCAATG	1 cut(s)	112
BseMI	GCAATG	1 cut(s)	112
BseMII	CTCAG	1 cut(s)	150
BseXI	GCAGC	2 cut(s)	7, 52
BspCNI	CTCAG	1 cut(s)	149
BsrDI	GCAATG	1 cut(s)	112
BssNI	GRCGYC	1 cut(s)	5
Bst4CI	ACNGT	1 cut(s)	43
BstACI	GRCGYC	1 cut(s)	5
BstC8I	GCNNGC	1 cut(s)	166
BstDEI	CTNAG	1 cut(s)	136
BstV1I	GCAGC	2 cut(s)	7, 52
BtsIMutI	CAGTG	1 cut(s)	152
Cac8I	GCNNGC	1 cut(s)	166
CseI	GACGC	1 cut(s)	71
CviJI	RGCY	3 cut(s)	20, 164, 168
CviKI_1	RGCY	3 cut(s)	20, 164, 168
DdeI	CTNAG	1 cut(s)	136
FaiI	YATR	1 cut(s)	39
FblI	GTMKAC	1 cut(s)	8
Fnu4HI	GCNGC	2 cut(s)	21, 66
Fsp4HI	GCNGC	2 cut(s)	21, 66
FspBI	CTAG	1 cut(s)	171
GluI	GCNGC	2 cut(s)	21, 66
HgaI	GACGC	1 cut(s)	71
Hin1I	GRCGYC	1 cut(s)	5
HincII	GTYRAC	1 cut(s)	9
HindII	GTYRAC	1 cut(s)	9
Hpy166II	GTNNAC	1 cut(s)	9
Hpy188I	TCNGA	3 cut(s)	57, 98, 139
Hpy188III	TCNNGA	2 cut(s)	47, 171
Hpy8I	GTNNAC	1 cut(s)	9
Hpy99I	CGWCG	1 cut(s)	10
HpyCH4III	ACNGT	1 cut(s)	43
HpyCH4V	TGCA	2 cut(s)	83, 105
HpyF3I	CTNAG	1 cut(s)	136
Hsp92I	GRCGYC	1 cut(s)	5
LmnI	GCTCC	1 cut(s)	28
LpnPI	CCDG	2 cut(s)	28, 150
Lsp1109I	GCAGC	2 cut(s)	7, 52
MaeI	CTAG	1 cut(s)	171
MfeI	CAATTG	1 cut(s)	84
MluCI	AATT	2 cut(s)	84, 199
MmeI	TCCRAC	1 cut(s)	94
MnlI	CCTC	1 cut(s)	103
MseI	TTAA	1 cut(s)	30
MunI	CAATTG	1 cut(s)	84
PkrI	GCNGC	2 cut(s)	22, 67
SalI	GTCGAC	1 cut(s)	7
SaqAI	TTAA	1 cut(s)	30
SatI	GCNGC	2 cut(s)	21, 66
SetI	ASST	3 cut(s)	22, 114, 132
SgeI	CNNG	4 cut(s)	27, 59, 177, 183
Sse9I	AATT	2 cut(s)	84, 199
SspMI	CTAG	1 cut(s)	171
TaaI	ACNGT	1 cut(s)	43
TaqI	TCGA	1 cut(s)	8
TasI	AATT	2 cut(s)	84, 199
Tru1I	TTAA	1 cut(s)	30
Tru9I	TTAA	1 cut(s)	30
TscAI	CASTG	1 cut(s)	152
TseI	GCWGC	2 cut(s)	20, 65
TspRI	CASTG	1 cut(s)	152
XbaI	TCTAGA	1 cut(s)	170
XmiI	GTMKAC	1 cut(s)	8
XspI	CTAG	1 cut(s)	171

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