Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0001458

Physical Location & Seq

Genomic Coordinates Forward (+)

49319923 .. 49322459

Gene Structure 2537 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG273500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 438 bp

ATGGACGCAATCAGCCAATTACAAGAACAGGTGAACAAAATCGCGACCATTGCTTTCACCACCATCGGAACCCTACAGAGGGACGCTCCACCCGTCCGAATCTCCCCCAATTACCCCGAATCCGAGTCAGCACCGCAACCCAACCCGAACCCGAACCCGACTGACGATGCCGCCGATTTTGCGATGCAGCCCAAGCTCATGAGCGCGGATCTAGTCAAAGCAGCCAAGCAGTTTGATGCATTGGTTTCGGCACTTCCGCTGTCGGAGGGAGGCGAGGAAGCTCAGATGAAGAGGATTGCGGAGCTTCAGGCCGAAAACAGCCTTGTAGGTCAACAACTTGAGAAGCAACTTGAAGCTGCAGAGAGGGAACTGGAAGAGGTCAGAGAGTTGTTTGGCCAAGCAGCAGATCACTGTTTGAACCTGAAGAAACCAGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Med21

Protein Analysis

145

Amino Acids

15.84

Weight (kDa)

4.52

Isoelectric Point (pI)

53.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med21	PF11221	1 - 135	3.6e-31	Subunit 21 of Mediator complex

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)

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Publication-ready

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Orthologous Genes (Group: OG0001458)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G04780
fragaria_vesca	FvH4_3g18180 FvH4_3g18181 FvH4_4g21200
malus_domestica	MD10G1319700.v1.1
prunus_persica	Prupe.1G108500_v2.0.a1 Prupe.1G108500_v2.0.a1 Prupe.1G108500_v2.0.a1 Prupe.1G108500_v2.0.a1 Prupe.1G108500_v2.0.a1 Prupe.4G022700_v2.0.a1 Prupe.4G022700_v2.0.a1 Prupe.4G022700_v2.0.a1 Prupe.4G022700_v2.0.a1 Prupe.4G022700_v2.0.a1 Prupe.4G022700_v2.0.a1 Prupe.4G022700_v2.0.a1
pyrus_communis	pycom10g27060 pycom16g12330
rosa_chinensis	RchiOBHm_Chr4g0426811 RchiOBHm_Chr5g0030661 RchiOBHm_Chr5g0030681
rosa_laevigata	RLG00000007276 RLG00000033237 RLG00000033242 RLG00000033244
rosa_multiflora	Rmu_sc0000953.1_g000011 Rmu_sc0004341.1_g000003 Rmu_sc0004963.1_g000002
rosa_roxburghii	Rroxscaffold_1G00049620 Rroxscaffold_1G00049630 Rroxscaffold_1G00049640 Rroxscaffold_5G00368780
rosa_rugosa	Rorug04G0215000 Rorug05G0120100 Rorug05G0120100
rosa_samantha	Rh4AG270000 Rh4BG276300 Rh4CG291000 Rh4DG273500 Rh5AG211500 Rh5AG211700 Rh5BG210400 Rh5BG210600 Rh5CG234200 Rh5DG215500 Rh5DG215600 Rh5DG215800 Rh5DG215900
rosa_wichuraiana	Rw4G023430 Rw5G019370 Rw5G019410

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	44, 206
AciI	CCGC	5 cut(s)	134, 171, 206, 257, 299
AclWI	GGATC	1 cut(s)	216
AcoI	YGGCCR	1 cut(s)	394
AcuI	CTGAAG	1 cut(s)	290
AfiI	CCNNNNNNNGG	2 cut(s)	78, 79
AgsI	TTSAA	2 cut(s)	353, 418
AluBI	AGCT	4 cut(s)	196, 281, 304, 356
AluI	AGCT	4 cut(s)	196, 281, 304, 356
AlwI	GGATC	1 cut(s)	216
AoxI	GGCC	2 cut(s)	309, 394
ApeKI	GCWGC	4 cut(s)	187, 221, 356, 401
AspLEI	GCGC	1 cut(s)	206
AsuHPI	GGTGA	2 cut(s)	43, 49
BalI	TGGCCA	1 cut(s)	396
BbvI	GCAGC	4 cut(s)	199, 233, 343, 413
BccI	CCATC	1 cut(s)	71
BcgI	CGANNNNNNTGC	2 cut(s)	228, 262
BfaI	CTAG	1 cut(s)	212
BfmI	CTRYAG	2 cut(s)	74, 357
BisI	GCNGC	5 cut(s)	171, 188, 222, 357, 402
BlsI	GCNGC	5 cut(s)	172, 189, 223, 358, 403
BmiI	GGNNCC	1 cut(s)	70
BmsI	GCATC	3 cut(s)	157, 174, 226
BplI	GAGNNNNNCTC	2 cut(s)	70, 102
BpuEI	CTTGAG	1 cut(s)	359
Bsc4I	CCNNNNNNNGG	2 cut(s)	78, 79
Bse1I	ACTGG	1 cut(s)	375
Bse3DI	GCAATG	1 cut(s)	48
BseLI	CCNNNNNNNGG	2 cut(s)	78, 79
BseMI	GCAATG	1 cut(s)	48
BseMII	CTCAG	1 cut(s)	296
BseNI	ACTGG	1 cut(s)	375
BseXI	GCAGC	4 cut(s)	199, 233, 343, 413
Bsh1236I	CGCG	2 cut(s)	44, 206
BshFI	GGCC	2 cut(s)	311, 396
BslFI	GGGAC	1 cut(s)	95
BslI	CCNNNNNNNGG	2 cut(s)	78, 79
BsmFI	GGGAC	1 cut(s)	95
BsnI	GGCC	2 cut(s)	311, 396
Bsp143I	GATC	2 cut(s)	208, 406
Bsp68I	TCGCGA	1 cut(s)	44
BspACI	CCGC	5 cut(s)	134, 171, 206, 257, 299
BspANI	GGCC	2 cut(s)	311, 396
BspCNI	CTCAG	1 cut(s)	295
BspFNI	CGCG	2 cut(s)	44, 206
BspHI	TCATGA	1 cut(s)	198
BspLI	GGNNCC	1 cut(s)	70
BspMAI	CTGCAG	1 cut(s)	361
BspPI	GGATC	1 cut(s)	216
BsrDI	GCAATG	1 cut(s)	48
BsrI	ACTGG	1 cut(s)	375
BssMI	GATC	2 cut(s)	208, 406
Bst4CI	ACNGT	1 cut(s)	413
Bst6I	CTCTTC	2 cut(s)	284, 369
BstDEI	CTNAG	1 cut(s)	282
BstFNI	CGCG	2 cut(s)	44, 206
BstHHI	GCGC	1 cut(s)	206
BstKTI	GATC	2 cut(s)	211, 409
BstMBI	GATC	2 cut(s)	208, 406
BstMWI	GCNNNNNNNGC	3 cut(s)	50, 179, 193
BstSFI	CTRYAG	2 cut(s)	74, 357
BstUI	CGCG	2 cut(s)	44, 206
BstV1I	GCAGC	4 cut(s)	199, 233, 343, 413
BstX2I	RGATCY	1 cut(s)	208
BstYI	RGATCY	1 cut(s)	208
BsuRI	GGCC	2 cut(s)	311, 396
BtgZI	GCGATG	1 cut(s)	197
BtsIMutI	CAGTG	1 cut(s)	409
BtuMI	TCGCGA	1 cut(s)	44
CciI	TCATGA	1 cut(s)	198
CfoI	GCGC	1 cut(s)	206
CseI	GACGC	2 cut(s)	14, 92
CviAII	CATG	1 cut(s)	199
DdeI	CTNAG	1 cut(s)	282
DpnI	GATC	2 cut(s)	210, 408
DpnII	GATC	2 cut(s)	208, 406
EaeI	YGGCCR	1 cut(s)	394
Eam1104I	CTCTTC	2 cut(s)	284, 369
EarI	CTCTTC	2 cut(s)	284, 369
Eco57I	CTGAAG	1 cut(s)	290
EcoT22I	ATGCAT	1 cut(s)	241
FaeI	CATG	1 cut(s)	202
FaiI	YATR	1 cut(s)	200
FaqI	GGGAC	1 cut(s)	95
FatI	CATG	1 cut(s)	198
Fnu4HI	GCNGC	5 cut(s)	171, 188, 222, 357, 402
Fsp4HI	GCNGC	5 cut(s)	171, 188, 222, 357, 402
FspBI	CTAG	1 cut(s)	212
GlaI	GCGC	1 cut(s)	205
GluI	GCNGC	5 cut(s)	171, 188, 222, 357, 402
HaeIII	GGCC	2 cut(s)	311, 396
HgaI	GACGC	2 cut(s)	14, 92
HhaI	GCGC	1 cut(s)	206
Hin1II	CATG	1 cut(s)	202
Hin6I	GCGC	1 cut(s)	204
HinP1I	GCGC	1 cut(s)	204
HincII	GTYRAC	1 cut(s)	332
HindII	GTYRAC	1 cut(s)	332
HinfI	GANTC	3 cut(s)	99, 119, 125
HphI	GGTGA	2 cut(s)	43, 49
Hpy166II	GTNNAC	2 cut(s)	34, 332
Hpy188I	TCNGA	6 cut(s)	68, 98, 124, 265, 285, 383
Hpy188III	TCNNGA	2 cut(s)	43, 199
Hpy8I	GTNNAC	2 cut(s)	34, 332
HpyCH4III	ACNGT	1 cut(s)	413
HpyCH4V	TGCA	3 cut(s)	187, 239, 359
HpyF10VI	GCNNNNNNNGC	3 cut(s)	50, 179, 193
HpyF3I	CTNAG	1 cut(s)	282
Hsp92II	CATG	1 cut(s)	202
HspAI	GCGC	1 cut(s)	204
Kzo9I	GATC	2 cut(s)	208, 406
LmnI	GCTCC	2 cut(s)	91, 301
LpnPI	CCDG	4 cut(s)	14, 293, 356, 434
Lsp1109I	GCAGC	4 cut(s)	199, 233, 343, 413
LweI	GCATC	3 cut(s)	157, 174, 226
MaeI	CTAG	1 cut(s)	212
MalI	GATC	2 cut(s)	210, 408
MboI	GATC	2 cut(s)	208, 406
MboII	GAAGA	3 cut(s)	301, 386, 436
MflI	RGATCY	1 cut(s)	208
MlsI	TGGCCA	1 cut(s)	396
MluCI	AATT	2 cut(s)	17, 109
MluNI	TGGCCA	1 cut(s)	396
MlyI	GAGTC	1 cut(s)	134
MmeI	TCCRAC	1 cut(s)	243
MnlI	CCTC	7 cut(s)	72, 259, 263, 268, 285, 357, 370
Mox20I	TGGCCA	1 cut(s)	396
Mph1103I	ATGCAT	1 cut(s)	241
MscI	TGGCCA	1 cut(s)	396
Msp20I	TGGCCA	1 cut(s)	396
MspA1I	CMGCKG	1 cut(s)	259
MvnI	CGCG	2 cut(s)	44, 206
MwoI	GCNNNNNNNGC	3 cut(s)	50, 179, 193
NdeII	GATC	2 cut(s)	208, 406
NlaIII	CATG	1 cut(s)	202
NlaIV	GGNNCC	1 cut(s)	70
NruI	TCGCGA	1 cut(s)	44
NsiI	ATGCAT	1 cut(s)	241
PagI	TCATGA	1 cut(s)	198
PcsI	WCGNNNNNNNCGW	2 cut(s)	90, 171
PfeI	GAWTC	2 cut(s)	99, 119
PkrI	GCNGC	5 cut(s)	172, 189, 223, 358, 403
PleI	GAGTC	1 cut(s)	133
PpsI	GAGTC	1 cut(s)	133
PspN4I	GGNNCC	1 cut(s)	70
PstI	CTGCAG	1 cut(s)	361
PsuI	RGATCY	1 cut(s)	208
RruI	TCGCGA	1 cut(s)	44
SatI	GCNGC	5 cut(s)	171, 188, 222, 357, 402
Sau3AI	GATC	2 cut(s)	208, 406
SchI	GAGTC	1 cut(s)	134
SetI	ASST	8 cut(s)	33, 198, 283, 306, 331, 358, 381, 423
SfaNI	GCATC	3 cut(s)	157, 174, 226
SfcI	CTRYAG	2 cut(s)	74, 357
SmlI	CTYRAG	1 cut(s)	338
SmoI	CTYRAG	1 cut(s)	338
Sse9I	AATT	2 cut(s)	17, 109
SsiI	CCGC	5 cut(s)	134, 171, 206, 257, 299
SspMI	CTAG	1 cut(s)	212
TaaI	ACNGT	1 cut(s)	413
TasI	AATT	2 cut(s)	17, 109
TauI	GCSGC	1 cut(s)	173
TfiI	GAWTC	2 cut(s)	99, 119
TscAI	CASTG	1 cut(s)	416
TseI	GCWGC	4 cut(s)	187, 221, 356, 401
TspDTI	ATGAA	1 cut(s)	302
TspRI	CASTG	1 cut(s)	416
XspI	CTAG	1 cut(s)	212
Zsp2I	ATGCAT	1 cut(s)	241

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