Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001458

Physical Location & Seq

Genomic Coordinates Reverse (-)

24338839 .. 24360253

Gene Structure 21415 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG234200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 417 bp

ATGATGGACATAATCTCTCAATTACAGGAACAAACCAATAAAATTGCTGCTCTTACCTTCAATACCTTTGGAACGTTGCAAAGGGATTCTCCTGCAGTCAAACTCTCTCCAAATTATCCAGAACCACCTGCTAACCCTACAGAGGATGCAGCAAATTTTGCTGAACAACCCAAGCCCATGAGTGCAGCTCTGGTTCAAGCTGCGAAGCAGTTTGATGCATTAGTTGCAGCACTACCATTAGCCGACGGAGGTGAAGAAGCACAGCTCAAAAGGATTGCAGAACTGCAGGCTGAAAATGATACTGTTGGCCAAGAACTCCAGAGACAACTGGAAGCAGCAGAGGGGGAACTAAAGCAGGTCCGCGAGTTGTTCAGCCAAGCTGCAGATAATTGCTTGAATTTGAAGAAACCGGATTAA

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

138

Amino Acids

14.99

Weight (kDa)

4.48

Isoelectric Point (pI)

53.63

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med21	PF11221	1 - 128	1.2e-26	Subunit 21 of Mediator complex

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)	136
Acc36I	ACCTGC	2 cut(s)	136, 346
AccII	CGCG	1 cut(s)	363
AciI	CCGC	1 cut(s)	361
AclI	AACGTT	1 cut(s)	74
AcoI	YGGCCR	1 cut(s)	307
AcsI	RAATTY	2 cut(s)	154, 397
AfiI	CCNNNNNNNGG	1 cut(s)	142
AgsI	TTSAA	4 cut(s)	61, 197, 397, 403
AluBI	AGCT	4 cut(s)	188, 200, 265, 380
AluI	AGCT	4 cut(s)	188, 200, 265, 380
Alw26I	GTCTC	1 cut(s)	316
AoxI	GGCC	1 cut(s)	307
ApeKI	GCWGC	7 cut(s)	47, 149, 185, 200, 227, 335, 380
ApoI	RAATTY	2 cut(s)	154, 397
AspS9I	GGNCC	1 cut(s)	358
AsuHPI	GGTGA	1 cut(s)	263
AvaII	GGWCC	1 cut(s)	358
BalI	TGGCCA	1 cut(s)	309
BbvI	GCAGC	7 cut(s)	34, 161, 187, 197, 239, 347, 367
BcoDI	GTCTC	1 cut(s)	316
BfmI	CTRYAG	4 cut(s)	93, 138, 284, 381
BfuAI	ACCTGC	2 cut(s)	136, 346
BisI	GCNGC	7 cut(s)	48, 150, 186, 201, 228, 336, 381
BlsI	GCNGC	7 cut(s)	49, 151, 187, 202, 229, 337, 382
Bme18I	GGWCC	1 cut(s)	358
BmgT120I	GGNCC	1 cut(s)	358
BmsI	GCATC	2 cut(s)	136, 205
BplI	GAGNNNNNCTC	2 cut(s)	172, 204
BpmI	CTGGAG	1 cut(s)	302
BsaWI	WCCGGW	1 cut(s)	409
Bsc4I	CCNNNNNNNGG	1 cut(s)	142
Bse1I	ACTGG	1 cut(s)	333
BseGI	GGATG	1 cut(s)	151
BseLI	CCNNNNNNNGG	1 cut(s)	142
BseNI	ACTGG	1 cut(s)	333
BseXI	GCAGC	7 cut(s)	34, 161, 187, 197, 239, 347, 367
BsgI	GTGCAG	1 cut(s)	204
Bsh1236I	CGCG	1 cut(s)	363
BshFI	GGCC	1 cut(s)	309
BsiSI	CCGG	1 cut(s)	410
BslI	CCNNNNNNNGG	1 cut(s)	142
BsmAI	GTCTC	1 cut(s)	316
BsnI	GGCC	1 cut(s)	309
BspACI	CCGC	1 cut(s)	361
BspANI	GGCC	1 cut(s)	309
BspFNI	CGCG	1 cut(s)	363
BspMAI	CTGCAG	3 cut(s)	97, 288, 385
BspMI	ACCTGC	2 cut(s)	136, 346
BsrI	ACTGG	1 cut(s)	333
Bst4CI	ACNGT	1 cut(s)	304
BstAPI	GCANNNNNTGC	2 cut(s)	158, 224
BstC8I	GCNNGC	1 cut(s)	288
BstF5I	GGATG	1 cut(s)	151
BstFNI	CGCG	1 cut(s)	363
BstMAI	GTCTC	1 cut(s)	316
BstMWI	GCNNNNNNNGC	2 cut(s)	158, 224
BstSFI	CTRYAG	4 cut(s)	93, 138, 284, 381
BstUI	CGCG	1 cut(s)	363
BstV1I	GCAGC	7 cut(s)	34, 161, 187, 197, 239, 347, 367
BsuRI	GGCC	1 cut(s)	309
BtsCI	GGATG	1 cut(s)	151
BveI	ACCTGC	2 cut(s)	136, 346
Cac8I	GCNNGC	1 cut(s)	288
Cfr13I	GGNCC	1 cut(s)	358
CviAII	CATG	1 cut(s)	178
CviJI	RGCY	9 cut(s)	175, 188, 200, 242, 265, 290, 309, 375, 380
CviKI_1	RGCY	9 cut(s)	175, 188, 200, 242, 265, 290, 309, 375, 380
EaeI	YGGCCR	1 cut(s)	307
Eco47I	GGWCC	1 cut(s)	358
EcoT22I	ATGCAT	1 cut(s)	220
FaeI	CATG	1 cut(s)	181
FaiI	YATR	2 cut(s)	11, 179
FatI	CATG	1 cut(s)	177
Fnu4HI	GCNGC	7 cut(s)	48, 150, 186, 201, 228, 336, 381
FokI	GGATG	1 cut(s)	158
Fsp4HI	GCNGC	7 cut(s)	48, 150, 186, 201, 228, 336, 381
GluI	GCNGC	7 cut(s)	48, 150, 186, 201, 228, 336, 381
GsuI	CTGGAG	1 cut(s)	302
HaeIII	GGCC	1 cut(s)	309
HapII	CCGG	1 cut(s)	410
Hin1II	CATG	1 cut(s)	181
HinfI	GANTC	1 cut(s)	86
HpaII	CCGG	1 cut(s)	410
HphI	GGTGA	1 cut(s)	263
Hpy188III	TCNNGA	2 cut(s)	119, 319
Hpy99I	CGWCG	1 cut(s)	248
HpyAV	CCTTC	1 cut(s)	67
HpyCH4III	ACNGT	1 cut(s)	304
HpyCH4IV	ACGT	1 cut(s)	74
HpyCH4V	TGCA	9 cut(s)	79, 95, 149, 185, 218, 227, 278, 286, 383
HpyF10VI	GCNNNNNNNGC	2 cut(s)	158, 224
HpySE526I	ACGT	1 cut(s)	74
Hsp92II	CATG	1 cut(s)	181
LpnPI	CCDG	9 cut(s)	11, 105, 132, 141, 176, 272, 314, 332, 341
Lsp1109I	GCAGC	7 cut(s)	34, 161, 187, 197, 239, 347, 367
LweI	GCATC	2 cut(s)	136, 205
MaeII	ACGT	1 cut(s)	74
MboII	GAAGA	2 cut(s)	266, 415
MlsI	TGGCCA	1 cut(s)	309
MluCI	AATT	6 cut(s)	20, 42, 112, 154, 388, 397
MluNI	TGGCCA	1 cut(s)	309
MnlI	CCTC	3 cut(s)	136, 242, 334
Mox20I	TGGCCA	1 cut(s)	309
Mph1103I	ATGCAT	1 cut(s)	220
MscI	TGGCCA	1 cut(s)	309
MseI	TTAA	1 cut(s)	415
Msp20I	TGGCCA	1 cut(s)	309
MspI	CCGG	1 cut(s)	410
MvnI	CGCG	1 cut(s)	363
MwoI	GCNNNNNNNGC	2 cut(s)	158, 224
NlaIII	CATG	1 cut(s)	181
NsiI	ATGCAT	1 cut(s)	220
PaqCI	CACCTGC	1 cut(s)	136
PfeI	GAWTC	1 cut(s)	86
PkrI	GCNGC	7 cut(s)	49, 151, 187, 202, 229, 337, 382
Psp1406I	AACGTT	1 cut(s)	74
PspPI	GGNCC	1 cut(s)	358
PstI	CTGCAG	3 cut(s)	97, 288, 385
SaqAI	TTAA	1 cut(s)	415
SatI	GCNGC	7 cut(s)	48, 150, 186, 201, 228, 336, 381
Sau96I	GGNCC	1 cut(s)	358
SfaNI	GCATC	2 cut(s)	136, 205
SfcI	CTRYAG	4 cut(s)	93, 138, 284, 381
SinI	GGWCC	1 cut(s)	358
Sse9I	AATT	6 cut(s)	20, 42, 112, 154, 388, 397
SsiI	CCGC	1 cut(s)	361
TaaI	ACNGT	1 cut(s)	304
TaiI	ACGT	1 cut(s)	77
TasI	AATT	6 cut(s)	20, 42, 112, 154, 388, 397
TfiI	GAWTC	1 cut(s)	86
Tru1I	TTAA	1 cut(s)	415
Tru9I	TTAA	1 cut(s)	415
TseI	GCWGC	7 cut(s)	47, 149, 185, 200, 227, 335, 380
TspGWI	ACGGA	1 cut(s)	261
VpaK11BI	GGWCC	1 cut(s)	358
XapI	RAATTY	2 cut(s)	154, 397
Zsp2I	ATGCAT	1 cut(s)	220

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