Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001458

Physical Location & Seq

Genomic Coordinates Reverse (-)

24417357 .. 24420372

Gene Structure 3016 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG210600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 414 bp

ATGGACATAATCTCTCAATTACAGGAACAAACCAATAAAATTGCTGCTCTTACCTTCAATACCTTTGGAACGTTGCAAAGGGATTCTCCTGCAGTCAAACTCTCTCCAAATTATCCAGAACCACCTGCTAACCCAACAGAGGATGCAGCAAATTTTGCTGAACAACCCAAGCTGATGAGTGCAGCTCTTGTTCAAGCTGCGAAGCAGTTTGATGCATTAGTTGCAGCACTACCATTAGCCGACGGAGGTGAAGAAGCACAGCTCAAAAGGATTGCAGAACTGCAGGCTGAAAATGATACTGTTGGCCAAGAACTCCAGAGACAACTGGAAGCAGCAGAGGAGGAACTAAAGCAGGTCCGCAAGTTGTTCAGCCAAGCTGCAGATAATTACTTGAATTTGAAGAAACCGGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002376 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006355 GO:0006950 GO:0006952 GO:0006955 GO:0008150 GO:0009605 GO:0009607 GO:0009620 GO:0009814 GO:0009817 GO:0009889 GO:0010468 GO:0010556 GO:0016592 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0031974 GO:0031981 GO:0032991 GO:0043076 GO:0043078 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045087 GO:0050789 GO:0050794 GO:0050832 GO:0050896 GO:0051171 GO:0051252 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0070013 GO:0080090 GO:0098542 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Med21

Protein Analysis

137

Amino Acids

15.01

Weight (kDa)

4.57

Isoelectric Point (pI)

58.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med21	PF11221	1 - 127	3.2e-26	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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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)
AarI	CACCTGC	1 cut(s)	133
Acc36I	ACCTGC	2 cut(s)	133, 343
AciI	CCGC	1 cut(s)	358
AclI	AACGTT	1 cut(s)	71
AcoI	YGGCCR	1 cut(s)	304
AcsI	RAATTY	2 cut(s)	151, 394
AfiI	CCNNNNNNNGG	1 cut(s)	139
AgsI	TTSAA	4 cut(s)	58, 194, 394, 400
AluBI	AGCT	5 cut(s)	172, 185, 197, 262, 377
AluI	AGCT	5 cut(s)	172, 185, 197, 262, 377
Alw26I	GTCTC	1 cut(s)	313
AoxI	GGCC	1 cut(s)	304
ApeKI	GCWGC	7 cut(s)	44, 146, 182, 197, 224, 332, 377
ApoI	RAATTY	2 cut(s)	151, 394
AspS9I	GGNCC	1 cut(s)	355
AsuHPI	GGTGA	1 cut(s)	260
AvaII	GGWCC	1 cut(s)	355
BalI	TGGCCA	1 cut(s)	306
BbvI	GCAGC	7 cut(s)	31, 158, 184, 194, 236, 344, 364
BcoDI	GTCTC	1 cut(s)	313
BfmI	CTRYAG	3 cut(s)	90, 281, 378
BfuAI	ACCTGC	2 cut(s)	133, 343
BisI	GCNGC	7 cut(s)	45, 147, 183, 198, 225, 333, 378
BlsI	GCNGC	7 cut(s)	46, 148, 184, 199, 226, 334, 379
Bme18I	GGWCC	1 cut(s)	355
BmgT120I	GGNCC	1 cut(s)	355
BmsI	GCATC	2 cut(s)	133, 202
BplI	GAGNNNNNCTC	2 cut(s)	169, 201
BpmI	CTGGAG	1 cut(s)	299
BsaWI	WCCGGW	1 cut(s)	406
Bsc4I	CCNNNNNNNGG	1 cut(s)	139
Bse1I	ACTGG	1 cut(s)	330
BseGI	GGATG	1 cut(s)	148
BseLI	CCNNNNNNNGG	1 cut(s)	139
BseNI	ACTGG	1 cut(s)	330
BseRI	GAGGAG	1 cut(s)	353
BseXI	GCAGC	7 cut(s)	31, 158, 184, 194, 236, 344, 364
BsgI	GTGCAG	1 cut(s)	201
BshFI	GGCC	1 cut(s)	306
BsiSI	CCGG	1 cut(s)	407
BslI	CCNNNNNNNGG	1 cut(s)	139
BsmAI	GTCTC	1 cut(s)	313
BsnI	GGCC	1 cut(s)	306
BspACI	CCGC	1 cut(s)	358
BspANI	GGCC	1 cut(s)	306
BspMAI	CTGCAG	3 cut(s)	94, 285, 382
BspMI	ACCTGC	2 cut(s)	133, 343
BsrI	ACTGG	1 cut(s)	330
Bst4CI	ACNGT	1 cut(s)	301
BstAPI	GCANNNNNTGC	2 cut(s)	155, 221
BstC8I	GCNNGC	1 cut(s)	285
BstF5I	GGATG	1 cut(s)	148
BstMAI	GTCTC	1 cut(s)	313
BstMWI	GCNNNNNNNGC	2 cut(s)	155, 221
BstSFI	CTRYAG	3 cut(s)	90, 281, 378
BstV1I	GCAGC	7 cut(s)	31, 158, 184, 194, 236, 344, 364
BsuRI	GGCC	1 cut(s)	306
BtsCI	GGATG	1 cut(s)	148
BveI	ACCTGC	2 cut(s)	133, 343
Cac8I	GCNNGC	1 cut(s)	285
Cfr13I	GGNCC	1 cut(s)	355
CviJI	RGCY	9 cut(s)	172, 185, 197, 239, 262, 287, 306, 372, 377
CviKI_1	RGCY	9 cut(s)	172, 185, 197, 239, 262, 287, 306, 372, 377
EaeI	YGGCCR	1 cut(s)	304
Eco47I	GGWCC	1 cut(s)	355
EcoT22I	ATGCAT	1 cut(s)	217
FaiI	YATR	1 cut(s)	8
Fnu4HI	GCNGC	7 cut(s)	45, 147, 183, 198, 225, 333, 378
FokI	GGATG	1 cut(s)	155
Fsp4HI	GCNGC	7 cut(s)	45, 147, 183, 198, 225, 333, 378
GluI	GCNGC	7 cut(s)	45, 147, 183, 198, 225, 333, 378
GsuI	CTGGAG	1 cut(s)	299
HaeIII	GGCC	1 cut(s)	306
HapII	CCGG	1 cut(s)	407
HinfI	GANTC	1 cut(s)	83
HpaII	CCGG	1 cut(s)	407
HphI	GGTGA	1 cut(s)	260
Hpy188III	TCNNGA	2 cut(s)	116, 316
Hpy99I	CGWCG	1 cut(s)	245
HpyAV	CCTTC	1 cut(s)	64
HpyCH4III	ACNGT	1 cut(s)	301
HpyCH4IV	ACGT	1 cut(s)	71
HpyCH4V	TGCA	9 cut(s)	76, 92, 146, 182, 215, 224, 275, 283, 380
HpyF10VI	GCNNNNNNNGC	2 cut(s)	155, 221
HpySE526I	ACGT	1 cut(s)	71
LpnPI	CCDG	8 cut(s)	8, 102, 129, 138, 269, 311, 329, 338
Lsp1109I	GCAGC	7 cut(s)	31, 158, 184, 194, 236, 344, 364
LweI	GCATC	2 cut(s)	133, 202
MaeII	ACGT	1 cut(s)	71
MboII	GAAGA	2 cut(s)	263, 412
MlsI	TGGCCA	1 cut(s)	306
MluCI	AATT	6 cut(s)	17, 39, 109, 151, 385, 394
MluNI	TGGCCA	1 cut(s)	306
MnlI	CCTC	4 cut(s)	133, 239, 331, 334
Mox20I	TGGCCA	1 cut(s)	306
Mph1103I	ATGCAT	1 cut(s)	217
MscI	TGGCCA	1 cut(s)	306
MseI	TTAA	1 cut(s)	412
Msp20I	TGGCCA	1 cut(s)	306
MspI	CCGG	1 cut(s)	407
MwoI	GCNNNNNNNGC	2 cut(s)	155, 221
NsiI	ATGCAT	1 cut(s)	217
PaqCI	CACCTGC	1 cut(s)	133
PfeI	GAWTC	1 cut(s)	83
PkrI	GCNGC	7 cut(s)	46, 148, 184, 199, 226, 334, 379
Psp1406I	AACGTT	1 cut(s)	71
PspPI	GGNCC	1 cut(s)	355
PstI	CTGCAG	3 cut(s)	94, 285, 382
SaqAI	TTAA	1 cut(s)	412
SatI	GCNGC	7 cut(s)	45, 147, 183, 198, 225, 333, 378
Sau96I	GGNCC	1 cut(s)	355
SfaNI	GCATC	2 cut(s)	133, 202
SfcI	CTRYAG	3 cut(s)	90, 281, 378
SinI	GGWCC	1 cut(s)	355
Sse9I	AATT	6 cut(s)	17, 39, 109, 151, 385, 394
SsiI	CCGC	1 cut(s)	358
TaaI	ACNGT	1 cut(s)	301
TaiI	ACGT	1 cut(s)	74
TasI	AATT	6 cut(s)	17, 39, 109, 151, 385, 394
TfiI	GAWTC	1 cut(s)	83
Tru1I	TTAA	1 cut(s)	412
Tru9I	TTAA	1 cut(s)	412
TseI	GCWGC	7 cut(s)	44, 146, 182, 197, 224, 332, 377
TspGWI	ACGGA	1 cut(s)	258
VpaK11BI	GGWCC	1 cut(s)	355
XapI	RAATTY	2 cut(s)	151, 394
Zsp2I	ATGCAT	1 cut(s)	217

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