Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0001458

Physical Location & Seq

Genomic Coordinates Forward (+)

24382212 .. 24406569

Gene Structure 24358 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG210400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGGATTCTCCACCAGGTTTCTCTTTGAAGCGGAAACGTGAACATCGACGTAAGCATGATAAGTCAGAACATGAAGAGAATGCAACCACAAAGCCTGGACCCGACATCTTGAAGTCAAACAAACAGAGTACGAGTACAAGCAAGGTTGAGGTAGGTCCAGCGTTTAATGGTGTTGTGGAAGAATATTTTGTTGGCGGGGTTCGAATGAAGGTGAAGGTAGGAGATACTGAGATGAAGGGTGTTGCATTTTATCCCGTCCCTCCGCCAAATGTTGTTCCCCCTGATATTAAGATGGTGACAAGAAAGGACCTTGCTATACCAGCCGTGCACTCTTCTTTACTTCATCGCTCAGCACAAGGCAGGAGGCAACGTGCTGAGCAGCTGAGAATTGCGACCCCAGTTTCTCTGGAGGGCTTTGTTTGGGTTCCAGACAAGGAACAAGTTGCTACCTTTGCGAGTGGTATCGGCGGCTGCGACGACGACGGCGTTGGAGTAGTCAGGCGGAGGGATTCTCCTGCTGTCAAACTTTCTCCAAATTATCCAGAACCACCTGCCAACCCTACAGAGGATGCAGCAAATTTTGCTGAACAACCCAAGCTCATGAGTGCAGCTCTGGTTCAAGCTGCAAAGCAGTTTGATGCATTAGTTGCAGCACTGCCATTAGCCGACGGAGGTGAAGAAGCACAGCTCAAAAGGATTGCAGAACTGCAGGCTGAAAATGATACTGTTGGCCAAGAACTCCAGAGACAACTGGAAGCAGCAGAGGAGGAACTAAAGCAGGTCCTCGAATTGTTCAGCCAAGCTGCAGATAATTGCTTGAATTTGAAGAAACCAGATTACAAAGTAAGGGAACTGATCTTCTCTCTGGAACTGGGTGGAGGGATTCCAGATCCTGTGGTTCCAGCCAATCTTCTCAAATTTCATGAGAGGGAAATAGTATAG

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

313

Amino Acids

34.25

Weight (kDa)

5.81

Isoelectric Point (pI)

56.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Med21	PF11221	181 - 269	3.5e-18	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)

Image

Tree File

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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)	559
Acc36I	ACCTGC	2 cut(s)	559, 769
AciI	CCGC	5 cut(s)	31, 195, 263, 468, 502
AclWI	GGATC	1 cut(s)	884
AcoI	YGGCCR	1 cut(s)	730
AcsI	RAATTY	3 cut(s)	577, 820, 917
AfaI	GTAC	2 cut(s)	130, 136
AfiI	CCNNNNNNNGG	1 cut(s)	565
AgsI	TTSAA	5 cut(s)	28, 112, 620, 820, 826
AjnI	CCWGG	2 cut(s)	13, 94
AjuI	GAANNNNNNNTTGG	2 cut(s)	174, 206
AluBI	AGCT	6 cut(s)	382, 598, 611, 623, 688, 803
AluI	AGCT	6 cut(s)	382, 598, 611, 623, 688, 803
Alw21I	GWGCWC	1 cut(s)	330
Alw26I	GTCTC	1 cut(s)	739
Alw44I	GTGCAC	1 cut(s)	326
AlwI	GGATC	1 cut(s)	884
AlwNI	CAGNNNCTG	1 cut(s)	893
AoxI	GGCC	1 cut(s)	730
ApaLI	GTGCAC	1 cut(s)	326
ApeKI	GCWGC	8 cut(s)	379, 471, 572, 608, 623, 650, 758, 803
ApoI	RAATTY	3 cut(s)	577, 820, 917
AspS9I	GGNCC	4 cut(s)	98, 155, 307, 781
AsuHPI	GGTGA	3 cut(s)	223, 307, 686
AsuII	TTCGAA	1 cut(s)	202
AvaII	GGWCC	4 cut(s)	98, 155, 307, 781
BaeGI	GKGCMC	1 cut(s)	330
BalI	TGGCCA	1 cut(s)	732
Bbv12I	GWGCWC	1 cut(s)	330
BbvI	GCAGC	8 cut(s)	391, 458, 584, 610, 620, 662, 770, 790
BccI	CCATC	1 cut(s)	286
BceAI	ACGGC	2 cut(s)	308, 499
BciT130I	CCWGG	2 cut(s)	15, 96
BcoDI	GTCTC	1 cut(s)	739
BfmI	CTRYAG	3 cut(s)	561, 707, 804
BfuAI	ACCTGC	2 cut(s)	559, 769
BisI	GCNGC	9 cut(s)	380, 469, 472, 573, 609, 624, 651, 759, 804
BlpI	GCTNAGC	2 cut(s)	349, 375
BlsI	GCNGC	9 cut(s)	381, 470, 473, 574, 610, 625, 652, 760, 805
Bme1390I	CCNGG	2 cut(s)	15, 96
Bme18I	GGWCC	4 cut(s)	98, 155, 307, 781
BmgT120I	GGNCC	4 cut(s)	98, 155, 307, 781
BmiI	GGNNCC	3 cut(s)	100, 426, 900
BmrFI	CCNGG	2 cut(s)	15, 96
BmrI	ACTGGG	2 cut(s)	392, 881
BmsI	GCATC	2 cut(s)	559, 628
BmuI	ACTGGG	2 cut(s)	392, 881
BplI	GAGNNNNNCTC	4 cut(s)	496, 528, 595, 627
BpmI	CTGGAG	2 cut(s)	428, 725
Bpu1102I	GCTNAGC	2 cut(s)	349, 375
Bpu14I	TTCGAA	1 cut(s)	202
BsaXI	ACNNNNNCTCC	2 cut(s)	355, 385
Bsc4I	CCNNNNNNNGG	1 cut(s)	565
Bse1I	ACTGG	3 cut(s)	398, 756, 876
BseBI	CCWGG	2 cut(s)	15, 96
BseGI	GGATG	1 cut(s)	574
BseLI	CCNNNNNNNGG	1 cut(s)	565
BseMII	CTCAG	4 cut(s)	219, 363, 366, 374
BseNI	ACTGG	3 cut(s)	398, 756, 876
BseRI	GAGGAG	1 cut(s)	779
BseSI	GKGCMC	1 cut(s)	330
BseXI	GCAGC	8 cut(s)	391, 458, 584, 610, 620, 662, 770, 790
BsgI	GTGCAG	1 cut(s)	627
BshFI	GGCC	1 cut(s)	732
BsiHKAI	GWGCWC	1 cut(s)	330
BslFI	GGGAC	1 cut(s)	242
BslI	CCNNNNNNNGG	1 cut(s)	565
BsmAI	GTCTC	1 cut(s)	739
BsmFI	GGGAC	1 cut(s)	242
BsmI	GAATGC	1 cut(s)	85
BsnI	GGCC	1 cut(s)	732
Bsp119I	TTCGAA	1 cut(s)	202
Bsp1286I	GDGCHC	1 cut(s)	330
Bsp143I	GATC	2 cut(s)	855, 889
Bsp1720I	GCTNAGC	2 cut(s)	349, 375
BspACI	CCGC	5 cut(s)	31, 195, 263, 468, 502
BspANI	GGCC	1 cut(s)	732
BspCNI	CTCAG	4 cut(s)	220, 362, 367, 375
BspHI	TCATGA	2 cut(s)	600, 922
BspLI	GGNNCC	3 cut(s)	100, 426, 900
BspMAI	CTGCAG	2 cut(s)	711, 808
BspMI	ACCTGC	2 cut(s)	559, 769
BspPI	GGATC	1 cut(s)	884
BspT104I	TTCGAA	1 cut(s)	202
BsrI	ACTGG	3 cut(s)	398, 756, 876
BssMI	GATC	2 cut(s)	855, 889
Bst2UI	CCWGG	2 cut(s)	15, 96
Bst4CI	ACNGT	1 cut(s)	727
Bst6I	CTCTTC	2 cut(s)	69, 337
BstAPI	GCANNNNNTGC	2 cut(s)	581, 647
BstBI	TTCGAA	1 cut(s)	202
BstC8I	GCNNGC	1 cut(s)	711
BstDEI	CTNAG	4 cut(s)	228, 349, 375, 383
BstF5I	GGATG	1 cut(s)	574
BstKTI	GATC	2 cut(s)	858, 892
BstMAI	GTCTC	1 cut(s)	739
BstMBI	GATC	2 cut(s)	855, 889
BstMWI	GCNNNNNNNGC	4 cut(s)	320, 452, 581, 647
BstNI	CCWGG	2 cut(s)	15, 96
BstSCI	CCNGG	2 cut(s)	13, 94
BstSFI	CTRYAG	3 cut(s)	561, 707, 804
BstSLI	GKGCMC	1 cut(s)	330
BstV1I	GCAGC	8 cut(s)	391, 458, 584, 610, 620, 662, 770, 790
BstX2I	RGATCY	1 cut(s)	889
BstYI	RGATCY	1 cut(s)	889
BsuRI	GGCC	1 cut(s)	732
BtgZI	GCGATG	1 cut(s)	329
BtsCI	GGATG	1 cut(s)	574
BtsI	GCAGTG	1 cut(s)	653
BtsIMutI	CAGTG	1 cut(s)	653
BveI	ACCTGC	2 cut(s)	559, 769
Cac8I	GCNNGC	1 cut(s)	711
CaiI	CAGNNNCTG	1 cut(s)	893
CciI	TCATGA	2 cut(s)	600, 922
Cfr13I	GGNCC	4 cut(s)	98, 155, 307, 781
CsiI	ACCWGGT	1 cut(s)	13
Csp6I	GTAC	2 cut(s)	129, 135
CviAII	CATG	4 cut(s)	56, 71, 601, 923
CviQI	GTAC	2 cut(s)	129, 135
DdeI	CTNAG	4 cut(s)	228, 349, 375, 383
DpnI	GATC	2 cut(s)	857, 891
DpnII	GATC	2 cut(s)	855, 889
EaeI	YGGCCR	1 cut(s)	730
Eam1104I	CTCTTC	2 cut(s)	69, 337
EarI	CTCTTC	2 cut(s)	69, 337
EciI	GGCGGA	2 cut(s)	252, 517
Eco47I	GGWCC	4 cut(s)	98, 155, 307, 781
EcoO109I	RGGNCCY	2 cut(s)	307, 781
EcoRII	CCWGG	2 cut(s)	13, 94
EcoT22I	ATGCAT	1 cut(s)	643
FaeI	CATG	4 cut(s)	59, 74, 604, 926
FaiI	YATR	6 cut(s)	57, 72, 317, 602, 924, 940
FaqI	GGGAC	1 cut(s)	242
FatI	CATG	4 cut(s)	55, 70, 600, 922
FauI	CCCGC	1 cut(s)	188
Fnu4HI	GCNGC	9 cut(s)	380, 469, 472, 573, 609, 624, 651, 759, 804
FokI	GGATG	1 cut(s)	581
Fsp4HI	GCNGC	9 cut(s)	380, 469, 472, 573, 609, 624, 651, 759, 804
GluI	GCNGC	9 cut(s)	380, 469, 472, 573, 609, 624, 651, 759, 804
GsuI	CTGGAG	2 cut(s)	428, 725
HaeIII	GGCC	1 cut(s)	732
Hin1II	CATG	4 cut(s)	59, 74, 604, 926
HinfI	GANTC	3 cut(s)	5, 509, 883
HphI	GGTGA	3 cut(s)	223, 307, 686
Hpy166II	GTNNAC	2 cut(s)	41, 328
Hpy188I	TCNGA	1 cut(s)	67
Hpy188III	TCNNGA	9 cut(s)	109, 407, 428, 542, 601, 742, 866, 887, 923
Hpy8I	GTNNAC	2 cut(s)	41, 328
Hpy99I	CGWCG	5 cut(s)	51, 479, 482, 485, 671
HpyAV	CCTTC	3 cut(s)	202, 208, 229
HpyCH4III	ACNGT	1 cut(s)	727
HpyCH4IV	ACGT	3 cut(s)	37, 49, 370
HpyF10VI	GCNNNNNNNGC	4 cut(s)	320, 452, 581, 647
HpyF3I	CTNAG	4 cut(s)	228, 349, 375, 383
HpySE526I	ACGT	3 cut(s)	37, 49, 370
Hsp92II	CATG	4 cut(s)	59, 74, 604, 926
Kzo9I	GATC	2 cut(s)	855, 889
Lsp1109I	GCAGC	8 cut(s)	391, 458, 584, 610, 620, 662, 770, 790
LweI	GCATC	2 cut(s)	559, 628
MabI	ACCWGGT	1 cut(s)	13
MaeII	ACGT	3 cut(s)	37, 49, 370
MaeIII	GTNAC	1 cut(s)	295
MalI	GATC	2 cut(s)	857, 891
MboI	GATC	2 cut(s)	855, 889
MboII	GAAGA	7 cut(s)	86, 191, 324, 689, 838, 850, 902
MflI	RGATCY	1 cut(s)	889
MhlI	GDGCHC	1 cut(s)	330
MlsI	TGGCCA	1 cut(s)	732
MluCI	AATT	7 cut(s)	387, 535, 577, 788, 811, 820, 917
MluNI	TGGCCA	1 cut(s)	732
MmeI	TCCRAC	1 cut(s)	469
Mox20I	TGGCCA	1 cut(s)	732
Mph1103I	ATGCAT	1 cut(s)	643
MscI	TGGCCA	1 cut(s)	732
MseI	TTAA	2 cut(s)	165, 288
Msp20I	TGGCCA	1 cut(s)	732
MspA1I	CMGCKG	1 cut(s)	382
MspR9I	CCNGG	2 cut(s)	15, 96
Mva1269I	GAATGC	1 cut(s)	85
MvaI	CCWGG	2 cut(s)	15, 96
MwoI	GCNNNNNNNGC	4 cut(s)	320, 452, 581, 647
NdeII	GATC	2 cut(s)	855, 889
NlaIII	CATG	4 cut(s)	59, 74, 604, 926
NlaIV	GGNNCC	3 cut(s)	100, 426, 900
NmuCI	GTSAC	1 cut(s)	295
NsiI	ATGCAT	1 cut(s)	643
NspV	TTCGAA	1 cut(s)	202
PagI	TCATGA	2 cut(s)	600, 922
PaqCI	CACCTGC	1 cut(s)	559
PcsI	WCGNNNNNNNCGW	3 cut(s)	43, 471, 483
PctI	GAATGC	1 cut(s)	85
PfeI	GAWTC	3 cut(s)	5, 509, 883
PkrI	GCNGC	9 cut(s)	381, 470, 473, 574, 610, 625, 652, 760, 805
PpuMI	RGGWCCY	2 cut(s)	307, 781
Psp5II	RGGWCCY	2 cut(s)	307, 781
Psp6I	CCWGG	2 cut(s)	13, 94
PspGI	CCWGG	2 cut(s)	13, 94
PspN4I	GGNNCC	3 cut(s)	100, 426, 900
PspPI	GGNCC	4 cut(s)	98, 155, 307, 781
PspPPI	RGGWCCY	2 cut(s)	307, 781
PstI	CTGCAG	2 cut(s)	711, 808
PstNI	CAGNNNCTG	1 cut(s)	893
PsuI	RGATCY	1 cut(s)	889
PvuII	CAGCTG	1 cut(s)	382
RsaI	GTAC	2 cut(s)	130, 136
RsaNI	GTAC	2 cut(s)	129, 135
SaqAI	TTAA	2 cut(s)	165, 288
SatI	GCNGC	9 cut(s)	380, 469, 472, 573, 609, 624, 651, 759, 804
Sau3AI	GATC	2 cut(s)	855, 889
Sau96I	GGNCC	4 cut(s)	98, 155, 307, 781
ScrFI	CCNGG	2 cut(s)	15, 96
SduI	GDGCHC	1 cut(s)	330
SexAI	ACCWGGT	1 cut(s)	13
SfaNI	GCATC	2 cut(s)	559, 628
SfcI	CTRYAG	3 cut(s)	561, 707, 804
SfuI	TTCGAA	1 cut(s)	202
SinI	GGWCC	4 cut(s)	98, 155, 307, 781
Sse9I	AATT	7 cut(s)	387, 535, 577, 788, 811, 820, 917
SsiI	CCGC	5 cut(s)	31, 195, 263, 468, 502
SspI	AATATT	1 cut(s)	185
StyD4I	CCNGG	2 cut(s)	13, 94
TaaI	ACNGT	1 cut(s)	727
TaiI	ACGT	3 cut(s)	40, 52, 373
TaqI	TCGA	3 cut(s)	46, 202, 786
TasI	AATT	7 cut(s)	387, 535, 577, 788, 811, 820, 917
TatI	WGTACW	1 cut(s)	134
TauI	GCSGC	1 cut(s)	471
TfiI	GAWTC	3 cut(s)	5, 509, 883
Tru1I	TTAA	2 cut(s)	165, 288
Tru9I	TTAA	2 cut(s)	165, 288
TscAI	CASTG	1 cut(s)	660
TseFI	GTSAC	1 cut(s)	295
TseI	GCWGC	8 cut(s)	379, 471, 572, 608, 623, 650, 758, 803
Tsp45I	GTSAC	1 cut(s)	295
TspDTI	ATGAA	5 cut(s)	87, 221, 248, 332, 911
TspGWI	ACGGA	1 cut(s)	684
TspRI	CASTG	1 cut(s)	660
VneI	GTGCAC	1 cut(s)	326
VpaK11BI	GGWCC	4 cut(s)	98, 155, 307, 781
XapI	RAATTY	3 cut(s)	577, 820, 917
Zsp2I	ATGCAT	1 cut(s)	643

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