Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001458

Physical Location & Seq

Genomic Coordinates Reverse (-)

24358249 .. 24361264

Gene Structure 3016 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG215800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 492 bp

ATGATGGACATAATCTCTCAATTACAGGAACAAACCAATAAAATTGCTGGTCTTACCTTCAATACCTTTGGAACGTTGCAAAGGGATTCTCCTGCAGTCAAACTCTCTCCAAATTATCGGGAACCACCTGCTAACCCTTCGGACGATGCAGCAAATTTTGCTGAACAACCCAAGCTCATGAGTGCAGCTCTGGTTCAAGCTGCGAAGCAGTTTGATGCATTAGTTGCAGCACTACCATTAGCCGACGGAGGTGAAGAAGCACAGCTCAAAAGGATTGCAGAACTGCAGGCTGAAAATGACACTGTTGGCCAAGAACTCCAGAGACAACTGGAAGCAGCAGGTCTATCTTTACCCTCCTTTATGTTAGCTATCAGACTTCTGCTTTCAAGAACTACCTTGCACTTCATATACAAATTGGTCATGAGATGTTTTTTGTTCATGGGACTTGTACTAAATTATCTTAAGAAGCTGCTACACTATCAAAGAAGATAA

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

163

Amino Acids

18.21

Weight (kDa)

7.86

Isoelectric Point (pI)

50.17

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med21	PF11221	1 - 113	3.3e-22	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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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)
AarI	CACCTGC	1 cut(s)	136
Acc36I	ACCTGC	2 cut(s)	136, 329
AclI	AACGTT	1 cut(s)	74
AcoI	YGGCCR	1 cut(s)	307
AcsI	RAATTY	1 cut(s)	154
AfaI	GTAC	1 cut(s)	450
AflII	CTTAAG	1 cut(s)	461
AgsI	TTSAA	3 cut(s)	61, 197, 387
AluBI	AGCT	6 cut(s)	175, 188, 200, 265, 368, 469
AluI	AGCT	6 cut(s)	175, 188, 200, 265, 368, 469
Alw26I	GTCTC	1 cut(s)	316
AoxI	GGCC	1 cut(s)	307
ApeKI	GCWGC	6 cut(s)	149, 185, 200, 227, 335, 469
ApoI	RAATTY	1 cut(s)	154
AsuHPI	GGTGA	1 cut(s)	263
BalI	TGGCCA	1 cut(s)	309
BbvI	GCAGC	6 cut(s)	161, 187, 197, 239, 347, 456
BcoDI	GTCTC	1 cut(s)	316
BfmI	CTRYAG	2 cut(s)	93, 284
BfrI	CTTAAG	1 cut(s)	461
BfuAI	ACCTGC	2 cut(s)	136, 329
BisI	GCNGC	6 cut(s)	150, 186, 201, 228, 336, 470
BlsI	GCNGC	6 cut(s)	151, 187, 202, 229, 337, 471
BmiI	GGNNCC	1 cut(s)	123
BmsI	GCATC	2 cut(s)	136, 205
BplI	GAGNNNNNCTC	2 cut(s)	172, 204
BpmI	CTGGAG	1 cut(s)	302
Bse1I	ACTGG	1 cut(s)	333
BseNI	ACTGG	1 cut(s)	333
BseXI	GCAGC	6 cut(s)	161, 187, 197, 239, 347, 456
BsgI	GTGCAG	1 cut(s)	204
BshFI	GGCC	1 cut(s)	309
BslFI	GGGAC	1 cut(s)	456
BsmAI	GTCTC	1 cut(s)	316
BsmFI	GGGAC	1 cut(s)	456
BsnI	GGCC	1 cut(s)	309
BspANI	GGCC	1 cut(s)	309
BspHI	TCATGA	2 cut(s)	177, 420
BspLI	GGNNCC	1 cut(s)	123
BspMAI	CTGCAG	2 cut(s)	97, 288
BspMI	ACCTGC	2 cut(s)	136, 329
BspTI	CTTAAG	1 cut(s)	461
BsrI	ACTGG	1 cut(s)	333
Bst4CI	ACNGT	1 cut(s)	304
BstAFI	CTTAAG	1 cut(s)	461
BstAPI	GCANNNNNTGC	2 cut(s)	158, 224
BstC8I	GCNNGC	1 cut(s)	288
BstMAI	GTCTC	1 cut(s)	316
BstMWI	GCNNNNNNNGC	2 cut(s)	158, 224
BstSFI	CTRYAG	2 cut(s)	93, 284
BstV1I	GCAGC	6 cut(s)	161, 187, 197, 239, 347, 456
BsuRI	GGCC	1 cut(s)	309
BtsIMutI	CAGTG	1 cut(s)	300
BveI	ACCTGC	2 cut(s)	136, 329
Cac8I	GCNNGC	1 cut(s)	288
CciI	TCATGA	2 cut(s)	177, 420
Csp6I	GTAC	1 cut(s)	449
CviAII	CATG	3 cut(s)	178, 421, 439
CviJI	RGCY	9 cut(s)	175, 188, 200, 242, 265, 290, 309, 368, 469
CviKI_1	RGCY	9 cut(s)	175, 188, 200, 242, 265, 290, 309, 368, 469
CviQI	GTAC	1 cut(s)	449
EaeI	YGGCCR	1 cut(s)	307
EcoT22I	ATGCAT	1 cut(s)	220
FaeI	CATG	3 cut(s)	181, 424, 442
FaiI	YATR	7 cut(s)	11, 179, 362, 407, 409, 422, 440
FaqI	GGGAC	1 cut(s)	456
FatI	CATG	3 cut(s)	177, 420, 438
Fnu4HI	GCNGC	6 cut(s)	150, 186, 201, 228, 336, 470
Fsp4HI	GCNGC	6 cut(s)	150, 186, 201, 228, 336, 470
GluI	GCNGC	6 cut(s)	150, 186, 201, 228, 336, 470
GsuI	CTGGAG	1 cut(s)	302
HaeIII	GGCC	1 cut(s)	309
Hin1II	CATG	3 cut(s)	181, 424, 442
HinfI	GANTC	1 cut(s)	86
HphI	GGTGA	1 cut(s)	263
Hpy188I	TCNGA	2 cut(s)	142, 374
Hpy188III	TCNNGA	5 cut(s)	119, 178, 319, 387, 421
Hpy99I	CGWCG	1 cut(s)	248
HpyAV	CCTTC	2 cut(s)	67, 147
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, 400
HpyF10VI	GCNNNNNNNGC	2 cut(s)	158, 224
HpySE526I	ACGT	1 cut(s)	74
Hsp92II	CATG	3 cut(s)	181, 424, 442
LpnPI	CCDG	9 cut(s)	11, 33, 105, 141, 176, 272, 314, 324, 332
Lsp1109I	GCAGC	6 cut(s)	161, 187, 197, 239, 347, 456
LweI	GCATC	2 cut(s)	136, 205
MaeII	ACGT	1 cut(s)	74
MboII	GAAGA	1 cut(s)	266
MlsI	TGGCCA	1 cut(s)	309
MluCI	AATT	6 cut(s)	20, 42, 112, 154, 413, 454
MluNI	TGGCCA	1 cut(s)	309
MnlI	CCTC	2 cut(s)	242, 364
Mox20I	TGGCCA	1 cut(s)	309
Mph1103I	ATGCAT	1 cut(s)	220
MscI	TGGCCA	1 cut(s)	309
MseI	TTAA	1 cut(s)	462
Msp20I	TGGCCA	1 cut(s)	309
MspCI	CTTAAG	1 cut(s)	461
MwoI	GCNNNNNNNGC	2 cut(s)	158, 224
NlaIII	CATG	3 cut(s)	181, 424, 442
NlaIV	GGNNCC	1 cut(s)	123
NsiI	ATGCAT	1 cut(s)	220
PagI	TCATGA	2 cut(s)	177, 420
PaqCI	CACCTGC	1 cut(s)	136
PfeI	GAWTC	1 cut(s)	86
PkrI	GCNGC	6 cut(s)	151, 187, 202, 229, 337, 471
Psp1406I	AACGTT	1 cut(s)	74
PspN4I	GGNNCC	1 cut(s)	123
PstI	CTGCAG	2 cut(s)	97, 288
RsaI	GTAC	1 cut(s)	450
RsaNI	GTAC	1 cut(s)	449
SaqAI	TTAA	1 cut(s)	462
SatI	GCNGC	6 cut(s)	150, 186, 201, 228, 336, 470
SfaNI	GCATC	2 cut(s)	136, 205
SfcI	CTRYAG	2 cut(s)	93, 284
SmlI	CTYRAG	1 cut(s)	461
SmoI	CTYRAG	1 cut(s)	461
Sse9I	AATT	6 cut(s)	20, 42, 112, 154, 413, 454
TaaI	ACNGT	1 cut(s)	304
TaiI	ACGT	1 cut(s)	77
TasI	AATT	6 cut(s)	20, 42, 112, 154, 413, 454
TatI	WGTACW	1 cut(s)	448
TfiI	GAWTC	1 cut(s)	86
Tru1I	TTAA	1 cut(s)	462
Tru9I	TTAA	1 cut(s)	462
TscAI	CASTG	1 cut(s)	307
TseI	GCWGC	6 cut(s)	149, 185, 200, 227, 335, 469
TspDTI	ATGAA	2 cut(s)	394, 427
TspGWI	ACGGA	1 cut(s)	261
TspRI	CASTG	1 cut(s)	307
Vha464I	CTTAAG	1 cut(s)	461
XapI	RAATTY	1 cut(s)	154
Zsp2I	ATGCAT	1 cut(s)	220

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