Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0006241

Physical Location & Seq

Genomic Coordinates Reverse (-)

15510908 .. 15517145

Gene Structure 6238 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG084800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 954 bp

ATGGGTTCGTCTTCAACCGACGCTTTTCCACAAATGCAGGAAATTATGCTGGAGTTTCGAGCTGGTAAAATGGCTTTTGAGGGGAAAAGGGTTATTCCCGATACTCGTAAAGGACTTGTTCGCATAGCAAGGGGTGAGGAGGGTTTGGTGCATTTCCAGTGGCTTGATCGGAATCAAAATGTAGTTGAAGATGATCAGATTGTTTTTCCTGATGAGGCAGTTTTTGAAAAGGTTAATCAAACATCAGGAAGGGTGTACATACTGAAGTTCAACACAGATGATAGGAAGTTTTTCTTTTGGATGCAGGAGCCGAAAGCTGAAGATGACACACAGTTATGTACCTCCGTTAATTACTACATCAATCGACCAATAGAAGAGATACTTGAAGAAGAAGGCCCTGATGGCTCAGTTCCTCTAACAGCTGATGATATGTTTGAAGATGATATTTCATCAAGAGCTGGAATCTTGGTGGAACCAAACTTGGGTGCGGAAGCAAGTAGCGATGTAACCTCTTCATCTGGCCCAGTGAAGCTGGAAGATCTTCAAAGAATCTTGAGTAACATCGATCGTGCAGATAGTGCTGGGGATCCAGATGGAGGCATAAATTTGGAGGATATATTGACACCTGATTTGATTCTGCCATTGATTGAGACATTGCCACTGCAACAGAGTTTAGGATCTTACTTGCCTGAGGGTCAATGGTCTCCGGAGGATATATTGGAGTTGCTGCAGAGTCCACCATTCCGCCAACAAATGGATTCATTCAATTATGTACTTCGAACAGGACAGATAGATTTGACTCAGTTTGGTATTGACCCAAGTAAATATAAGTTCACAGTATTGTCTTTTCTTGAGGCACTTGAGGATTCAGTTTCAAAAACATCCGAGGAATCAATGCAAGATGACAAGGATTTAAGATCTGAATCTTGTAATCCCATGGATGAATCCCAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000502 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005838 GO:0006508 GO:0006511 GO:0006807 GO:0008047 GO:0008150 GO:0008152 GO:0008541 GO:0009056 GO:0009057 GO:0009893 GO:0009987 GO:0010604 GO:0010950 GO:0010952 GO:0016043 GO:0016504 GO:0019222 GO:0019538 GO:0019941 GO:0022607 GO:0022624 GO:0030162 GO:0030163 GO:0030234 GO:0031323 GO:0031325 GO:0032182 GO:0032268 GO:0032270 GO:0032991 GO:0034622 GO:0043085 GO:0043130 GO:0043170 GO:0043248 GO:0043632 GO:0043933 GO:0044085 GO:0044093 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044424 GO:0044464 GO:0044877 GO:0045862 GO:0048518 GO:0048522 GO:0050789 GO:0050790 GO:0050794 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051336 GO:0051345 GO:0051603 GO:0052547 GO:0052548 GO:0060255 GO:0061133 GO:0061134 GO:0061135 GO:0065003 GO:0065007 GO:0065009 GO:0070628 GO:0071704 GO:0071840 GO:0080090 GO:0098772 GO:1901564 GO:1901565 GO:1901575 GO:1902494 GO:1905368 GO:1905369

KEGG Pathways

Metabolic & Signaling

ko03050 ko05169 map03050 map05169

Pfam Domains

Protein Families

Proteasom_Rpn13 RPN13_C

Protein Analysis

317

Amino Acids

35.7

Weight (kDa)

4.16

Isoelectric Point (pI)

59.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Rpn13_ADRM1_Pru	PF04683	17 - 113	2.2e-32	Proteasome complex subunit Rpn13, Pru domain
RPN13_C	PF16550	182 - 287	6.6e-26	UCH-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0006241)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G26590 AT2G26590 AT2G26590 AT2G26590
fragaria_vesca	FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040 FvH4_4g06040
malus_domestica	MD16G1238000.v1.1
prunus_persica	Prupe.1G063800_v2.0.a1 Prupe.1G063800_v2.0.a1 Prupe.1G063800_v2.0.a1 Prupe.1G063800_v2.0.a1
pyrus_communis	pycom16g19920
rosa_chinensis	RchiOBHm_Chr4g0397601
rosa_laevigata	RLG00000009425
rosa_multiflora	Rmu_sc0005653.1_g000003
rosa_roxburghii	Rroxscaffold_5G00342410
rosa_rugosa	Rorug03G0342400
rosa_samantha	Rh4AG079200 Rh4BG077100 Rh4CG084800 Rh4DG072200
rosa_wichuraiana	Rw4G006480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	754
AccIII	TCCGGA	1 cut(s)	706
AciI	CCGC	2 cut(s)	488, 745
AclWI	GGATC	3 cut(s)	581, 594, 685
AcsI	RAATTY	1 cut(s)	604
AcuI	CTGAAG	2 cut(s)	284, 339
AfaI	GTAC	3 cut(s)	257, 340, 774
AfiI	CCNNNNNNNGG	3 cut(s)	482, 596, 754
AgsI	TTSAA	9 cut(s)	15, 188, 227, 271, 386, 437, 545, 766, 876
AluBI	AGCT	5 cut(s)	62, 317, 422, 458, 532
AluI	AGCT	5 cut(s)	62, 317, 422, 458, 532
Alw26I	GTCTC	2 cut(s)	644, 708
AlwI	GGATC	3 cut(s)	581, 594, 685
Aor13HI	TCCGGA	1 cut(s)	706
AoxI	GGCC	2 cut(s)	394, 520
ApeKI	GCWGC	1 cut(s)	727
ApoI	RAATTY	1 cut(s)	604
ArsI	GACNNNNNNTTYG	2 cut(s)	613, 645
Asp700I	GAANNNNTTC	2 cut(s)	290, 540
AspS9I	GGNCC	2 cut(s)	395, 521
AsuHPI	GGTGA	1 cut(s)	146
AsuII	TTCGAA	1 cut(s)	778
AxyI	CCTNAGG	1 cut(s)	690
BamHI	GGATCC	1 cut(s)	586
BbsI	GAAGAC	1 cut(s)	3
BbvI	GCAGC	1 cut(s)	714
BccI	CCATC	2 cut(s)	395, 587
BclI	TGATCA	1 cut(s)	193
BcoDI	GTCTC	2 cut(s)	644, 708
BfmI	CTRYAG	1 cut(s)	728
BglI	GCCNNNNNGGC	1 cut(s)	402
BglII	AGATCT	2 cut(s)	538, 917
BisI	GCNGC	1 cut(s)	728
BlsI	GCNGC	1 cut(s)	729
BmgT120I	GGNCC	2 cut(s)	395, 521
BmiI	GGNNCC	3 cut(s)	309, 474, 588
BmrI	ACTGGG	2 cut(s)	518, 943
BmsI	GCATC	1 cut(s)	291
BmuI	ACTGGG	2 cut(s)	518, 943
BpiI	GAAGAC	1 cut(s)	3
BpmI	CTGGAG	1 cut(s)	71
Bpu14I	TTCGAA	1 cut(s)	778
BpuEI	CTTGAG	3 cut(s)	574, 872, 881
Bsa29I	ATCGAT	1 cut(s)	564
BsaBI	GATNNNNATC	2 cut(s)	171, 922
BsaI	GGTCTC	1 cut(s)	708
BsaJI	CCNNGG	2 cut(s)	885, 936
BsaWI	WCCGGW	1 cut(s)	706
Bsc4I	CCNNNNNNNGG	3 cut(s)	482, 596, 754
Bse1I	ACTGG	3 cut(s)	157, 524, 949
Bse21I	CCTNAGG	1 cut(s)	690
Bse3DI	GCAATG	1 cut(s)	653
Bse8I	GATNNNNATC	2 cut(s)	171, 922
BseAI	TCCGGA	1 cut(s)	706
BseCI	ATCGAT	1 cut(s)	564
BseDI	CCNNGG	2 cut(s)	885, 936
BseGI	GGATG	3 cut(s)	306, 881, 946
BseJI	GATNNNNATC	2 cut(s)	171, 922
BseLI	CCNNNNNNNGG	3 cut(s)	482, 596, 754
BseMI	GCAATG	1 cut(s)	653
BseMII	CTCAG	3 cut(s)	420, 681, 815
BseNI	ACTGG	3 cut(s)	157, 524, 949
BseRI	GAGGAG	1 cut(s)	152
BseXI	GCAGC	1 cut(s)	714
BseYI	CCCAGC	1 cut(s)	581
BsgI	GTGCAG	1 cut(s)	591
Bsh1285I	CGRYCG	1 cut(s)	568
BshFI	GGCC	2 cut(s)	396, 522
BshVI	ATCGAT	1 cut(s)	564
BsiEI	CGRYCG	1 cut(s)	568
BsiSI	CCGG	1 cut(s)	707
BslI	CCNNNNNNNGG	3 cut(s)	482, 596, 754
BsmAI	GTCTC	2 cut(s)	644, 708
BsnI	GGCC	2 cut(s)	396, 522
Bso31I	GGTCTC	1 cut(s)	708
Bsp119I	TTCGAA	1 cut(s)	778
Bsp13I	TCCGGA	1 cut(s)	706
Bsp1407I	TGTACA	1 cut(s)	255
Bsp143I	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
Bsp19I	CCATGG	1 cut(s)	936
BspACI	CCGC	2 cut(s)	488, 745
BspANI	GGCC	2 cut(s)	396, 522
BspCNI	CTCAG	3 cut(s)	419, 682, 814
BspDI	ATCGAT	1 cut(s)	564
BspEI	TCCGGA	1 cut(s)	706
BspLI	GGNNCC	3 cut(s)	309, 474, 588
BspMAI	CTGCAG	1 cut(s)	732
BspPI	GGATC	3 cut(s)	581, 594, 685
BspT104I	TTCGAA	1 cut(s)	778
BspTNI	GGTCTC	1 cut(s)	708
BsrDI	GCAATG	1 cut(s)	653
BsrGI	TGTACA	1 cut(s)	255
BsrI	ACTGG	3 cut(s)	157, 524, 949
BssECI	CCNNGG	2 cut(s)	885, 936
BssMI	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
BssT1I	CCWWGG	1 cut(s)	936
Bst4CI	ACNGT	2 cut(s)	333, 838
Bst6I	CTCTTC	2 cut(s)	369, 517
BstAPI	GCANNNNNTGC	1 cut(s)	578
BstAUI	TGTACA	1 cut(s)	255
BstBI	TTCGAA	1 cut(s)	778
BstDEI	CTNAG	3 cut(s)	406, 690, 801
BstDSI	CCRYGG	1 cut(s)	936
BstF5I	GGATG	3 cut(s)	306, 881, 946
BstKTI	GATC	7 cut(s)	169, 196, 541, 568, 589, 680, 920
BstMAI	GTCTC	2 cut(s)	644, 708
BstMBI	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
BstMCI	CGRYCG	1 cut(s)	568
BstMWI	GCNNNNNNNGC	2 cut(s)	402, 578
BstSFI	CTRYAG	1 cut(s)	728
BstV1I	GCAGC	1 cut(s)	714
BstV2I	GAAGAC	1 cut(s)	3
BstX2I	RGATCY	4 cut(s)	538, 586, 677, 917
BstYI	RGATCY	4 cut(s)	538, 586, 677, 917
Bsu15I	ATCGAT	1 cut(s)	564
Bsu36I	CCTNAGG	1 cut(s)	690
BsuRI	GGCC	2 cut(s)	396, 522
BsuTUI	ATCGAT	1 cut(s)	564
BtgI	CCRYGG	1 cut(s)	936
BtgZI	GCGATG	1 cut(s)	516
BtsCI	GGATG	3 cut(s)	306, 881, 946
BtsI	GCAGTG	1 cut(s)	659
BtsIMutI	CAGTG	3 cut(s)	164, 531, 659
Cfr13I	GGNCC	2 cut(s)	395, 521
ClaI	ATCGAT	1 cut(s)	564
CseI	GACGC	1 cut(s)	29
Csp6I	GTAC	3 cut(s)	256, 339, 773
CviAII	CATG	1 cut(s)	937
CviQI	GTAC	3 cut(s)	256, 339, 773
DdeI	CTNAG	3 cut(s)	406, 690, 801
DpnI	GATC	7 cut(s)	168, 195, 540, 567, 588, 679, 919
DpnII	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
Eam1104I	CTCTTC	2 cut(s)	369, 517
EarI	CTCTTC	2 cut(s)	369, 517
EciI	GGCGGA	1 cut(s)	734
Eco130I	CCWWGG	1 cut(s)	936
Eco31I	GGTCTC	1 cut(s)	708
Eco57I	CTGAAG	2 cut(s)	284, 339
Eco81I	CCTNAGG	1 cut(s)	690
EcoO109I	RGGNCCY	1 cut(s)	395
EcoT14I	CCWWGG	1 cut(s)	936
ErhI	CCWWGG	1 cut(s)	936
FaeI	CATG	1 cut(s)	940
FalI	AAGNNNNNCTT	4 cut(s)	278, 310, 366, 398
FatI	CATG	1 cut(s)	936
FbaI	TGATCA	1 cut(s)	193
Fnu4HI	GCNGC	1 cut(s)	728
FokI	GGATG	2 cut(s)	313, 868
Fsp4HI	GCNGC	1 cut(s)	728
GluI	GCNGC	1 cut(s)	728
GsaI	CCCAGC	1 cut(s)	585
GsuI	CTGGAG	1 cut(s)	71
HaeIII	GGCC	2 cut(s)	396, 522
HapII	CCGG	1 cut(s)	707
HgaI	GACGC	1 cut(s)	29
Hin1II	CATG	1 cut(s)	940
HpaII	CCGG	1 cut(s)	707
HphI	GGTGA	1 cut(s)	146
Hpy166II	GTNNAC	3 cut(s)	256, 737, 834
Hpy188I	TCNGA	4 cut(s)	171, 198, 886, 922
Hpy188III	TCNNGA	8 cut(s)	98, 209, 246, 453, 553, 590, 707, 851
Hpy8I	GTNNAC	3 cut(s)	256, 737, 834
Hpy99I	CGWCG	1 cut(s)	23
HpyAV	CCTTC	2 cut(s)	243, 386
HpyCH4III	ACNGT	2 cut(s)	333, 838
HpyCH4V	TGCA	7 cut(s)	37, 151, 304, 572, 664, 730, 898
HpyF10VI	GCNNNNNNNGC	2 cut(s)	402, 578
HpyF3I	CTNAG	3 cut(s)	406, 690, 801
Hsp92II	CATG	1 cut(s)	940
Kpn2I	TCCGGA	1 cut(s)	706
Ksp22I	TGATCA	1 cut(s)	193
Kzo9I	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
LmnI	GCTCC	1 cut(s)	307
Lsp1109I	GCAGC	1 cut(s)	714
LweI	GCATC	1 cut(s)	291
MaeIII	GTNAC	2 cut(s)	505, 557
MalI	GATC	7 cut(s)	168, 195, 540, 567, 588, 679, 919
MboI	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
MflI	RGATCY	4 cut(s)	538, 586, 677, 917
MluCI	AATT	4 cut(s)	42, 349, 604, 766
MlyI	GAGTC	2 cut(s)	742, 793
MroI	TCCGGA	1 cut(s)	706
MroXI	GAANNNNTTC	2 cut(s)	290, 540
MseI	TTAA	3 cut(s)	234, 348, 914
MslI	CAYNNNNRTG	1 cut(s)	334
MspA1I	CMGCKG	1 cut(s)	422
MspI	CCGG	1 cut(s)	707
MwoI	GCNNNNNNNGC	2 cut(s)	402, 578
NcoI	CCATGG	1 cut(s)	936
NdeII	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
NlaIII	CATG	1 cut(s)	940
NlaIV	GGNNCC	3 cut(s)	309, 474, 588
NspV	TTCGAA	1 cut(s)	778
PdmI	GAANNNNTTC	2 cut(s)	290, 540
PfeI	GAWTC	9 cut(s)	172, 462, 549, 634, 758, 866, 890, 923, 944
PflMI	CCANNNNNTGG	1 cut(s)	754
PkrI	GCNGC	1 cut(s)	729
Ple19I	CGATCG	1 cut(s)	568
PleI	GAGTC	2 cut(s)	741, 793
PpsI	GAGTC	2 cut(s)	741, 793
PspFI	CCCAGC	1 cut(s)	581
PspN4I	GGNNCC	3 cut(s)	309, 474, 588
PspPI	GGNCC	2 cut(s)	395, 521
PstI	CTGCAG	1 cut(s)	732
PsuI	RGATCY	4 cut(s)	538, 586, 677, 917
PvuI	CGATCG	1 cut(s)	568
PvuII	CAGCTG	1 cut(s)	422
RsaI	GTAC	3 cut(s)	257, 340, 774
RsaNI	GTAC	3 cut(s)	256, 339, 773
RseI	CAYNNNNRTG	1 cut(s)	334
SaqAI	TTAA	3 cut(s)	234, 348, 914
SatI	GCNGC	1 cut(s)	728
Sau3AI	GATC	7 cut(s)	166, 193, 538, 565, 586, 677, 917
Sau96I	GGNCC	2 cut(s)	395, 521
SchI	GAGTC	2 cut(s)	742, 793
SetI	ASST	9 cut(s)	64, 234, 319, 344, 424, 460, 512, 534, 628
SfaNI	GCATC	1 cut(s)	291
SfcI	CTRYAG	1 cut(s)	728
SfuI	TTCGAA	1 cut(s)	778
SmiMI	CAYNNNNRTG	1 cut(s)	334
SmlI	CTYRAG	3 cut(s)	553, 851, 860
SmoI	CTYRAG	3 cut(s)	553, 851, 860
Sse9I	AATT	4 cut(s)	42, 349, 604, 766
SsiI	CCGC	2 cut(s)	488, 745
StyI	CCWWGG	1 cut(s)	936
TaaI	ACNGT	2 cut(s)	333, 838
TaqI	TCGA	4 cut(s)	58, 364, 564, 778
TasI	AATT	4 cut(s)	42, 349, 604, 766
TatI	WGTACW	2 cut(s)	255, 772
TfiI	GAWTC	9 cut(s)	172, 462, 549, 634, 758, 866, 890, 923, 944
Tru1I	TTAA	3 cut(s)	234, 348, 914
Tru9I	TTAA	3 cut(s)	234, 348, 914
TscAI	CASTG	3 cut(s)	164, 531, 666
TseI	GCWGC	1 cut(s)	727
TspDTI	ATGAA	3 cut(s)	438, 504, 750
TspGWI	ACGGA	1 cut(s)	334
TspRI	CASTG	3 cut(s)	164, 531, 666
Van91I	CCANNNNNTGG	1 cut(s)	754
XapI	RAATTY	1 cut(s)	604
XmnI	GAANNNNTTC	2 cut(s)	290, 540

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