Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004484

Physical Location & Seq

Genomic Coordinates Forward (+)

73084247 .. 73086129

Gene Structure 1883 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG423900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 282 bp

ATGGATAAGAGCATGATAGGAGATCTGGATTCGCTTCCAGAGGAAGATAAGCTCAGAATGGCCACCATGATCGACCAGCTCCAAATCCGCGACAGTTTAAGGATGTACAACTCACTTGTCGAGAGATGCTTCAATGATTGTGTTGACACTTTCAAGCACAAATCACTGCAGAAGCAAGAGGAAACCTGTGTTCGGCGATGTGCTGAGAAGTTTCTCAAACATTCGATGCGTGTTGGCATGAGGTTTGCAGAGCTTAACCAGGGAGCCGCAACCCAGGACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005215 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005740 GO:0005743 GO:0005758 GO:0006605 GO:0006626 GO:0006810 GO:0006839 GO:0006886 GO:0006996 GO:0007005 GO:0007006 GO:0007007 GO:0008104 GO:0008150 GO:0008565 GO:0009987 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0017038 GO:0019866 GO:0031090 GO:0031966 GO:0031967 GO:0031970 GO:0031974 GO:0031975 GO:0032991 GO:0033036 GO:0033365 GO:0034613 GO:0042719 GO:0042721 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044425 GO:0044429 GO:0044444 GO:0044446 GO:0044455 GO:0044464 GO:0044743 GO:0045039 GO:0045184 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0055085 GO:0061024 GO:0065002 GO:0070013 GO:0070585 GO:0070727 GO:0071702 GO:0071705 GO:0071806 GO:0071840 GO:0072321 GO:0072594 GO:0072655 GO:0072657 GO:0090150 GO:0090151 GO:0098796 GO:0098798 GO:0098800 GO:1990351 GO:1990542

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-Tim10_DDP

Protein Analysis

93

Amino Acids

10.88

Weight (kDa)

6.1

Isoelectric Point (pI)

43.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-Tim10_DDP	PF02953	23 - 84	5.7e-22	Tim10/DDP family zinc finger

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

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Publication-ready

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Orthologous Genes (Group: OG0004484)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G46560
fragaria_vesca	FvH4_3g36110 FvH4_6g13690
malus_domestica	MD03G1093400.v1.1 MD04G1129100.v1.1 MD11G1108200.v1.1 MD12G1141800.v1.1
prunus_persica	Prupe.6G077400_v2.0.a1 Prupe.6G255300_v2.0.a1
pyrus_communis	pycom03g07500 pycom04g11730 pycom11g08940 pycom12g13650
rosa_chinensis	RchiOBHm_Chr3g0466561 RchiOBHm_Chr5g0064531
rosa_multiflora	Rmu_sc0003352.1_g000004 Rmu_sc0018367.1_g000003 Rmu_sc0020778.1_g000005
rosa_roxburghii	Rroxscaffold_1G00016490 Rroxscaffold_6G00414370
rosa_rugosa	Rorug03G0082700 Rorug05G0365900
rosa_samantha	Rh3AG129600 Rh3BG151000 Rh3CG150700 Rh3DG151600 Rh5AG423900 Rh5BG439300 Rh5CG461900 Rh5DG452600
rosa_wichuraiana	Rw3G012250 Rw5G039850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	90
AciI	CCGC	2 cut(s)	88, 267
AcoI	YGGCCR	1 cut(s)	60
AfaI	GTAC	1 cut(s)	107
AfiI	CCNNNNNNNGG	1 cut(s)	192
AgsI	TTSAA	2 cut(s)	133, 154
AjnI	CCWGG	2 cut(s)	258, 273
AluBI	AGCT	3 cut(s)	52, 79, 253
AluI	AGCT	3 cut(s)	52, 79, 253
AoxI	GGCC	1 cut(s)	60
BalI	TGGCCA	1 cut(s)	62
BciT130I	CCWGG	2 cut(s)	260, 275
BfaI	CTAG	1 cut(s)	280
BfmI	CTRYAG	1 cut(s)	167
BglII	AGATCT	1 cut(s)	22
BisI	GCNGC	1 cut(s)	267
BlsI	GCNGC	1 cut(s)	268
Bme1390I	CCNGG	2 cut(s)	260, 275
BmiI	GGNNCC	1 cut(s)	265
BmrFI	CCNGG	2 cut(s)	260, 275
BmsI	GCATC	2 cut(s)	116, 216
BsaJI	CCNNGG	2 cut(s)	259, 273
Bsc4I	CCNNNNNNNGG	1 cut(s)	192
BseBI	CCWGG	2 cut(s)	260, 275
BseDI	CCNNGG	2 cut(s)	259, 273
BseGI	GGATG	1 cut(s)	108
BseLI	CCNNNNNNNGG	1 cut(s)	192
BseMII	CTCAG	2 cut(s)	67, 195
Bsh1236I	CGCG	1 cut(s)	90
BshFI	GGCC	1 cut(s)	62
BslI	CCNNNNNNNGG	1 cut(s)	192
BsnI	GGCC	1 cut(s)	62
Bsp1407I	TGTACA	1 cut(s)	105
Bsp143I	GATC	2 cut(s)	22, 69
BspACI	CCGC	2 cut(s)	88, 267
BspANI	GGCC	1 cut(s)	62
BspCNI	CTCAG	2 cut(s)	66, 196
BspFNI	CGCG	1 cut(s)	90
BspLI	GGNNCC	1 cut(s)	265
BspMAI	CTGCAG	1 cut(s)	171
BsrGI	TGTACA	1 cut(s)	105
BssECI	CCNNGG	2 cut(s)	259, 273
BssMI	GATC	2 cut(s)	22, 69
Bst2UI	CCWGG	2 cut(s)	260, 275
Bst4CI	ACNGT	1 cut(s)	95
BstAUI	TGTACA	1 cut(s)	105
BstDEI	CTNAG	2 cut(s)	53, 204
BstF5I	GGATG	1 cut(s)	108
BstFNI	CGCG	1 cut(s)	90
BstKTI	GATC	2 cut(s)	25, 72
BstMBI	GATC	2 cut(s)	22, 69
BstNI	CCWGG	2 cut(s)	260, 275
BstSCI	CCNGG	2 cut(s)	258, 273
BstSFI	CTRYAG	1 cut(s)	167
BstUI	CGCG	1 cut(s)	90
BstX2I	RGATCY	1 cut(s)	22
BstYI	RGATCY	1 cut(s)	22
BsuRI	GGCC	1 cut(s)	62
BtgZI	GCGATG	1 cut(s)	211
BtsCI	GGATG	1 cut(s)	108
BtsI	GCAGTG	1 cut(s)	164
BtsIMutI	CAGTG	1 cut(s)	164
Csp6I	GTAC	1 cut(s)	106
CviAII	CATG	3 cut(s)	13, 67, 238
CviJI	RGCY	5 cut(s)	52, 62, 79, 253, 266
CviKI_1	RGCY	5 cut(s)	52, 62, 79, 253, 266
CviQI	GTAC	1 cut(s)	106
DdeI	CTNAG	2 cut(s)	53, 204
DpnI	GATC	2 cut(s)	24, 71
DpnII	GATC	2 cut(s)	22, 69
EaeI	YGGCCR	1 cut(s)	60
EcoRII	CCWGG	2 cut(s)	258, 273
FaeI	CATG	3 cut(s)	16, 70, 241
FaiI	YATR	3 cut(s)	14, 68, 239
FatI	CATG	3 cut(s)	12, 66, 237
Fnu4HI	GCNGC	1 cut(s)	267
FokI	GGATG	1 cut(s)	115
Fsp4HI	GCNGC	1 cut(s)	267
FspBI	CTAG	1 cut(s)	280
GluI	GCNGC	1 cut(s)	267
HaeIII	GGCC	1 cut(s)	62
Hin1II	CATG	3 cut(s)	16, 70, 241
HincII	GTYRAC	1 cut(s)	145
HindII	GTYRAC	1 cut(s)	145
HinfI	GANTC	1 cut(s)	29
Hpy166II	GTNNAC	1 cut(s)	145
Hpy188I	TCNGA	1 cut(s)	56
Hpy188III	TCNNGA	3 cut(s)	26, 38, 121
Hpy8I	GTNNAC	1 cut(s)	145
HpyCH4III	ACNGT	1 cut(s)	95
HpyCH4V	TGCA	2 cut(s)	169, 248
HpyF3I	CTNAG	2 cut(s)	53, 204
Hsp92II	CATG	3 cut(s)	16, 70, 241
Kzo9I	GATC	2 cut(s)	22, 69
LmnI	GCTCC	2 cut(s)	84, 263
LpnPI	CCDG	7 cut(s)	11, 51, 89, 199, 245, 260, 272
LweI	GCATC	2 cut(s)	116, 216
MaeI	CTAG	1 cut(s)	280
MalI	GATC	2 cut(s)	24, 71
MboI	GATC	2 cut(s)	22, 69
MboII	GAAGA	1 cut(s)	56
MflI	RGATCY	1 cut(s)	22
MlsI	TGGCCA	1 cut(s)	62
MluNI	TGGCCA	1 cut(s)	62
MnlI	CCTC	3 cut(s)	34, 172, 234
Mox20I	TGGCCA	1 cut(s)	62
MscI	TGGCCA	1 cut(s)	62
MseI	TTAA	2 cut(s)	98, 255
Msp20I	TGGCCA	1 cut(s)	62
MspR9I	CCNGG	2 cut(s)	260, 275
MvaI	CCWGG	2 cut(s)	260, 275
MvnI	CGCG	1 cut(s)	90
NdeII	GATC	2 cut(s)	22, 69
NlaIII	CATG	3 cut(s)	16, 70, 241
NlaIV	GGNNCC	1 cut(s)	265
PfeI	GAWTC	1 cut(s)	29
PkrI	GCNGC	1 cut(s)	268
Psp6I	CCWGG	2 cut(s)	258, 273
PspGI	CCWGG	2 cut(s)	258, 273
PspN4I	GGNNCC	1 cut(s)	265
PstI	CTGCAG	1 cut(s)	171
PsuI	RGATCY	1 cut(s)	22
RsaI	GTAC	1 cut(s)	107
RsaNI	GTAC	1 cut(s)	106
SaqAI	TTAA	2 cut(s)	98, 255
SatI	GCNGC	1 cut(s)	267
Sau3AI	GATC	2 cut(s)	22, 69
ScrFI	CCNGG	2 cut(s)	260, 275
SetI	ASST	5 cut(s)	54, 81, 188, 245, 255
SfaNI	GCATC	2 cut(s)	116, 216
SfcI	CTRYAG	1 cut(s)	167
SsiI	CCGC	2 cut(s)	88, 267
SspMI	CTAG	1 cut(s)	280
StyD4I	CCNGG	2 cut(s)	258, 273
TaaI	ACNGT	1 cut(s)	95
TaqI	TCGA	3 cut(s)	72, 120, 224
TatI	WGTACW	1 cut(s)	105
TauI	GCSGC	1 cut(s)	269
TfiI	GAWTC	1 cut(s)	29
Tru1I	TTAA	2 cut(s)	98, 255
Tru9I	TTAA	2 cut(s)	98, 255
TscAI	CASTG	1 cut(s)	171
TspRI	CASTG	1 cut(s)	171
XspI	CTAG	1 cut(s)	280

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