Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0011440

Physical Location & Seq

Genomic Coordinates Forward (+)

40849612 .. 40857907

Gene Structure 8296 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG160400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1017 bp

ATGGCGGCGAACACAATGGTTAGATCCTTTCTTCAGGTTGCTGCTACAGAAGAGGTTGCTCCCCCTCTCAGAGTTGTTCAGATCGAAGGACTGGTTATCTTGAAGATAATCAAGCACTGTAAGGAGTTTGCACCGGCTCTGGTCACAGGCCAACTTCTTGGCTTGGATGTTGGCAGTGTTCTTGAAGTCACTAATTGTTTCCCATTCCCGATTAGGGAGGAGGATGAAGAGATTGAAGCTGATGGTGCCAATTACCAGCTCGAGATGATGAGATGTTTGAGAGAGGTGAATGTTGACAATAACACTGTTGGATGGTACCAATCCACATTGTTGGGTTCTTTTCAAACGGTGGAGTTGATTGAGACATTCATGAACTACCAGGAAAATATTAGACGGTGTGTGTGCATCATTTATGATCCATTGAAATCCAATCAGGGAGTCTTAGCACTGAAGGCATTGAAACTTTCTGATTCATTCATGGAGCTCTACCGCAGTAACAATTTTACAGGGGAGAAGTTGAGGGAGAAAAACCTTTCATGGGTGGATATCTTTGAGGAAATACCTATCAAAGTTTCAAACTCTGCACTTATTAGTGCATTTATGACGGAGTTGGAAGCTGATACACCTGTTATCCAGTGTGATTATGATCGTCTGCAATTATCAACTAGTCCATTTCTAGAGAGGAATATGGAATTTCTTATTGAGTGCATGGACGATTTGTCAATGGAACAGCAGAAGTTCCAATACTATTACAGAAACGTGTCACGCCAGCAAGCCCAACAGCAAGCATGGCTTCAAAAGAGAAGGACTGAGAACATGGGTCGGAAGGCTGCCGGAGAAGAACTGCTTCCTGAAGAGGATCCTTCAAACCCCATTTTCAAGCCACTCCCCGAGCCTTCACGGTTGGACAGCTTTCTGATAACAAATCAAATCTCAAACTACTGCAACCAAATTAATGGGGTTGCCGGACAGAGCTTCAGCAGATTATATTTGACGAAGGCTTTGCATGAGAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005840 GO:0005844 GO:0006417 GO:0006446 GO:0008150 GO:0009719 GO:0009725 GO:0009733 GO:0009737 GO:0009743 GO:0009744 GO:0009746 GO:0009749 GO:0009889 GO:0009891 GO:0009893 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010608 GO:0010628 GO:0019222 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032268 GO:0032270 GO:0032991 GO:0033993 GO:0034248 GO:0034250 GO:0034284 GO:0034285 GO:0034286 GO:0042221 GO:0042788 GO:0043226 GO:0043228 GO:0043229 GO:0043232 GO:0044424 GO:0044444 GO:0044464 GO:0045727 GO:0045948 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0060255 GO:0065007 GO:0080090 GO:0097305 GO:1901700 GO:1990904 GO:2000112

KEGG Pathways

Metabolic & Signaling

ko00906 ko01100 ko01110 ko03013 ko05162 map00906 map01100 map01110 map03013 map05162

Pfam Domains

Protein Families

JAB

Protein Analysis

338

Amino Acids

38.77

Weight (kDa)

4.76

Isoelectric Point (pI)

52.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
JAB	PF01398	24 - 128	1.3e-16	JAB1/Mov34/MPN/PAD-1 ubiquitin protease
eIF3h_C	PF19445	144 - 337	2.4e-56	C-terminal region of eIF3h

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: OG0011440)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10840 AT1G10840
fragaria_vesca	FvH4_4g12310 FvH4_4g12310 FvH4_4g12310
malus_domestica	MD04G1027700.v1.1
prunus_persica	Prupe.1G177100_v2.0.a1
pyrus_communis	pycom04g02430
rosa_chinensis	RchiOBHm_Chr4g0410381
rosa_laevigata	RLG00000008432
rosa_multiflora	Rmu_co8348189.1_g000001 Rmu_sc0002111.1_g000016
rosa_roxburghii	Rroxscaffold_5G00355200
rosa_rugosa	Rorug04G0102200 Rorug04G0102200
rosa_samantha	Rh4AG160400 Rh4BG159500 Rh4CG172500 Rh4DG155300
rosa_wichuraiana	Rw4G013370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	315
AccB1I	GGYRCC	2 cut(s)	245, 315
AciI	CCGC	2 cut(s)	5, 490
AclWI	GGATC	4 cut(s)	18, 410, 854, 867
AcsI	RAATTY	1 cut(s)	692
AcuI	CTGAAG	4 cut(s)	17, 470, 873, 961
AfaI	GTAC	1 cut(s)	317
AfiI	CCNNNNNNNGG	2 cut(s)	214, 538
AflIII	ACRYGT	1 cut(s)	759
AhdI	GACNNNNNGTC	1 cut(s)	718
AhlI	ACTAGT	1 cut(s)	665
AjnI	CCWGG	1 cut(s)	378
AluBI	AGCT	6 cut(s)	239, 259, 484, 617, 912, 975
AluI	AGCT	6 cut(s)	239, 259, 484, 617, 912, 975
Alw21I	GWGCWC	1 cut(s)	486
Alw26I	GTCTC	1 cut(s)	356
AlwI	GGATC	4 cut(s)	18, 410, 854, 867
Ama87I	CYCGRG	2 cut(s)	260, 890
AoxI	GGCC	1 cut(s)	148
ApeKI	GCWGC	2 cut(s)	41, 830
ApoI	RAATTY	1 cut(s)	692
ArsI	GACNNNNNNTTYG	2 cut(s)	985, 1017
AseI	ATTAAT	1 cut(s)	954
Asp700I	GAANNNNTTC	1 cut(s)	846
Asp718I	GGTACC	1 cut(s)	315
AsuHPI	GGTGA	1 cut(s)	298
AvaI	CYCGRG	2 cut(s)	260, 890
BaeI	ACNNNNGTAYC	2 cut(s)	612, 645
BamHI	GGATCC	1 cut(s)	859
BanI	GGYRCC	2 cut(s)	245, 315
BanII	GRGCYC	1 cut(s)	486
BarI	GAAGNNNNNNTAC	2 cut(s)	728, 760
Bbv12I	GWGCWC	1 cut(s)	486
BbvI	GCAGC	2 cut(s)	28, 817
BccI	CCATC	2 cut(s)	236, 306
BcgI	CGANNNNNNTGC	1 cut(s)	985
BciT130I	CCWGG	1 cut(s)	380
BcoDI	GTCTC	1 cut(s)	356
BcuI	ACTAGT	1 cut(s)	665
BfaI	CTAG	2 cut(s)	666, 677
BfmI	CTRYAG	1 cut(s)	45
BisI	GCNGC	3 cut(s)	6, 42, 831
BlsI	GCNGC	3 cut(s)	7, 43, 832
Bme1390I	CCNGG	1 cut(s)	380
BmeRI	GACNNNNNGTC	1 cut(s)	718
BmeT110I	CYCGRG	2 cut(s)	260, 890
BmiI	GGNNCC	3 cut(s)	247, 317, 861
BmrFI	CCNGG	1 cut(s)	380
BmsI	GCATC	1 cut(s)	414
BsaBI	GATNNNNATC	1 cut(s)	645
Bsc4I	CCNNNNNNNGG	2 cut(s)	214, 538
Bse118I	RCCGGY	1 cut(s)	133
Bse1I	ACTGG	2 cut(s)	96, 634
Bse8I	GATNNNNATC	1 cut(s)	645
BseBI	CCWGG	1 cut(s)	380
BseGI	GGATG	3 cut(s)	172, 229, 317
BseJI	GATNNNNATC	1 cut(s)	645
BseLI	CCNNNNNNNGG	2 cut(s)	214, 538
BseMII	CTCAG	2 cut(s)	82, 801
BseNI	ACTGG	2 cut(s)	96, 634
BseRI	GAGGAG	1 cut(s)	233
BseXI	GCAGC	2 cut(s)	28, 817
BsgI	GTGCAG	1 cut(s)	567
BshFI	GGCC	1 cut(s)	150
BshNI	GGYRCC	2 cut(s)	245, 315
BsiHKAI	GWGCWC	1 cut(s)	486
BsiHKCI	CYCGRG	2 cut(s)	260, 890
BsiSI	CCGG	3 cut(s)	134, 834, 966
BslI	CCNNNNNNNGG	2 cut(s)	214, 538
BsmAI	GTCTC	1 cut(s)	356
BsnI	GGCC	1 cut(s)	150
BsoBI	CYCGRG	2 cut(s)	260, 890
Bsp1286I	GDGCHC	1 cut(s)	486
Bsp143I	GATC	5 cut(s)	23, 81, 415, 646, 859
BspACI	CCGC	2 cut(s)	5, 490
BspANI	GGCC	1 cut(s)	150
BspCNI	CTCAG	2 cut(s)	81, 802
BspHI	TCATGA	1 cut(s)	369
BspLI	GGNNCC	3 cut(s)	247, 317, 861
BspPI	GGATC	4 cut(s)	18, 410, 854, 867
BspT107I	GGYRCC	2 cut(s)	245, 315
BsrFI	RCCGGY	1 cut(s)	133
BsrI	ACTGG	2 cut(s)	96, 634
BssAI	RCCGGY	1 cut(s)	133
BssMI	GATC	5 cut(s)	23, 81, 415, 646, 859
Bst2UI	CCWGG	1 cut(s)	380
Bst4CI	ACNGT	5 cut(s)	119, 307, 349, 396, 903
Bst6I	CTCTTC	3 cut(s)	45, 222, 849
BstC8I	GCNNGC	3 cut(s)	770, 774, 786
BstDEI	CTNAG	3 cut(s)	68, 442, 810
BstF5I	GGATG	3 cut(s)	172, 229, 317
BstKTI	GATC	5 cut(s)	26, 84, 418, 649, 862
BstMAI	GTCTC	1 cut(s)	356
BstMBI	GATC	5 cut(s)	23, 81, 415, 646, 859
BstMWI	GCNNNNNNNGC	3 cut(s)	245, 452, 790
BstNI	CCWGG	1 cut(s)	380
BstSCI	CCNGG	1 cut(s)	378
BstSFI	CTRYAG	1 cut(s)	45
BstV1I	GCAGC	2 cut(s)	28, 817
BstX2I	RGATCY	2 cut(s)	23, 859
BstXI	CCANNNNNNTGG	3 cut(s)	158, 331, 956
BstYI	RGATCY	2 cut(s)	23, 859
BsuRI	GGCC	1 cut(s)	150
BtsCI	GGATG	3 cut(s)	172, 229, 317
BtsI	GCAGTG	1 cut(s)	181
BtsIMutI	CAGTG	5 cut(s)	115, 181, 303, 446, 641
Cac8I	GCNNGC	3 cut(s)	770, 774, 786
CciI	TCATGA	1 cut(s)	369
Cfr10I	RCCGGY	1 cut(s)	133
Csp6I	GTAC	1 cut(s)	316
CviAII	CATG	7 cut(s)	370, 478, 537, 709, 789, 817, 1007
CviQI	GTAC	1 cut(s)	316
DdeI	CTNAG	3 cut(s)	68, 442, 810
DpnI	GATC	5 cut(s)	25, 83, 417, 648, 861
DpnII	GATC	5 cut(s)	23, 81, 415, 646, 859
DriI	GACNNNNNGTC	1 cut(s)	718
Eam1104I	CTCTTC	3 cut(s)	45, 222, 849
Eam1105I	GACNNNNNGTC	1 cut(s)	718
EarI	CTCTTC	3 cut(s)	45, 222, 849
Ecl136II	GAGCTC	1 cut(s)	484
Eco24I	GRGCYC	1 cut(s)	486
Eco32I	GATATC	1 cut(s)	547
Eco53kI	GAGCTC	1 cut(s)	484
Eco57I	CTGAAG	4 cut(s)	17, 470, 873, 961
Eco88I	CYCGRG	2 cut(s)	260, 890
EcoICRI	GAGCTC	1 cut(s)	484
EcoRII	CCWGG	1 cut(s)	378
EcoRV	GATATC	1 cut(s)	547
EcoT38I	GRGCYC	1 cut(s)	486
FaeI	CATG	7 cut(s)	373, 481, 540, 712, 792, 820, 1010
FalI	AAGNNNNNCTT	4 cut(s)	777, 809, 831, 863
FatI	CATG	7 cut(s)	369, 477, 536, 708, 788, 816, 1006
Fnu4HI	GCNGC	3 cut(s)	6, 42, 831
FokI	GGATG	3 cut(s)	179, 236, 324
FriOI	GRGCYC	1 cut(s)	486
Fsp4HI	GCNGC	3 cut(s)	6, 42, 831
FspBI	CTAG	2 cut(s)	666, 677
GluI	GCNGC	3 cut(s)	6, 42, 831
HaeIII	GGCC	1 cut(s)	150
HapII	CCGG	3 cut(s)	134, 834, 966
Hin1II	CATG	7 cut(s)	373, 481, 540, 712, 792, 820, 1010
HincII	GTYRAC	1 cut(s)	295
HindII	GTYRAC	1 cut(s)	295
HinfI	GANTC	2 cut(s)	438, 470
HpaII	CCGG	3 cut(s)	134, 834, 966
HphI	GGTGA	1 cut(s)	298
Hpy166II	GTNNAC	1 cut(s)	295
Hpy188I	TCNGA	5 cut(s)	71, 81, 469, 825, 918
Hpy188III	TCNNGA	7 cut(s)	100, 182, 208, 262, 370, 677, 851
Hpy8I	GTNNAC	1 cut(s)	295
HpyAV	CCTTC	7 cut(s)	80, 445, 798, 820, 873, 906, 991
HpyCH4III	ACNGT	5 cut(s)	119, 307, 349, 396, 903
HpyCH4IV	ACGT	1 cut(s)	759
HpyCH4V	TGCA	8 cut(s)	131, 405, 584, 596, 655, 708, 945, 1006
HpyF10VI	GCNNNNNNNGC	3 cut(s)	245, 452, 790
HpyF3I	CTNAG	3 cut(s)	68, 442, 810
HpySE526I	ACGT	1 cut(s)	759
Hsp92II	CATG	7 cut(s)	373, 481, 540, 712, 792, 820, 1010
KpnI	GGTACC	1 cut(s)	319
Kzo9I	GATC	5 cut(s)	23, 81, 415, 646, 859
LmnI	GCTCC	2 cut(s)	64, 481
Lsp1109I	GCAGC	2 cut(s)	28, 817
LweI	GCATC	1 cut(s)	414
MaeI	CTAG	2 cut(s)	666, 677
MaeII	ACGT	1 cut(s)	759
MaeIII	GTNAC	4 cut(s)	142, 187, 494, 762
MalI	GATC	5 cut(s)	25, 83, 417, 648, 861
MboI	GATC	5 cut(s)	23, 81, 415, 646, 859
MboII	GAAGA	6 cut(s)	23, 62, 115, 239, 851, 866
MflI	RGATCY	2 cut(s)	23, 859
MhlI	GDGCHC	1 cut(s)	486
MluCI	AATT	6 cut(s)	193, 250, 499, 656, 692, 951
MlyI	GAGTC	1 cut(s)	447
MmeI	TCCRAC	4 cut(s)	289, 591, 803, 885
MnlI	CCTC	9 cut(s)	46, 75, 211, 214, 277, 513, 547, 675, 850
MroXI	GAANNNNTTC	1 cut(s)	846
MseI	TTAA	1 cut(s)	954
MspI	CCGG	3 cut(s)	134, 834, 966
MspR9I	CCNGG	1 cut(s)	380
MvaI	CCWGG	1 cut(s)	380
MwoI	GCNNNNNNNGC	3 cut(s)	245, 452, 790
NdeII	GATC	5 cut(s)	23, 81, 415, 646, 859
NlaIII	CATG	7 cut(s)	373, 481, 540, 712, 792, 820, 1010
NlaIV	GGNNCC	3 cut(s)	247, 317, 861
NmuCI	GTSAC	3 cut(s)	142, 187, 762
PaeR7I	CTCGAG	1 cut(s)	260
PagI	TCATGA	1 cut(s)	369
PdmI	GAANNNNTTC	1 cut(s)	846
PfeI	GAWTC	1 cut(s)	470
PkrI	GCNGC	3 cut(s)	7, 43, 832
PleI	GAGTC	1 cut(s)	446
PpsI	GAGTC	1 cut(s)	446
PshBI	ATTAAT	1 cut(s)	954
Psp124BI	GAGCTC	1 cut(s)	486
Psp6I	CCWGG	1 cut(s)	378
PspGI	CCWGG	1 cut(s)	378
PspN4I	GGNNCC	3 cut(s)	247, 317, 861
PsuI	RGATCY	2 cut(s)	23, 859
RsaI	GTAC	1 cut(s)	317
RsaNI	GTAC	1 cut(s)	316
SacI	GAGCTC	1 cut(s)	486
SaqAI	TTAA	1 cut(s)	954
SatI	GCNGC	3 cut(s)	6, 42, 831
Sau3AI	GATC	5 cut(s)	23, 81, 415, 646, 859
SchI	GAGTC	1 cut(s)	447
ScrFI	CCNGG	1 cut(s)	380
SduI	GDGCHC	1 cut(s)	486
SfaNI	GCATC	1 cut(s)	414
SfcI	CTRYAG	1 cut(s)	45
Sfr274I	CTCGAG	1 cut(s)	260
SlaI	CTCGAG	1 cut(s)	260
SmlI	CTYRAG	1 cut(s)	260
SmoI	CTYRAG	1 cut(s)	260
SpeI	ACTAGT	1 cut(s)	665
Sse9I	AATT	6 cut(s)	193, 250, 499, 656, 692, 951
SsiI	CCGC	2 cut(s)	5, 490
SspI	AATATT	1 cut(s)	388
SspMI	CTAG	2 cut(s)	666, 677
SstI	GAGCTC	1 cut(s)	486
StyD4I	CCNGG	1 cut(s)	378
TaaI	ACNGT	5 cut(s)	119, 307, 349, 396, 903
TaiI	ACGT	1 cut(s)	762
TaqI	TCGA	2 cut(s)	84, 261
TasI	AATT	6 cut(s)	193, 250, 499, 656, 692, 951
TauI	GCSGC	1 cut(s)	8
TfiI	GAWTC	1 cut(s)	470
Tru1I	TTAA	1 cut(s)	954
Tru9I	TTAA	1 cut(s)	954
TscAI	CASTG	5 cut(s)	122, 181, 310, 453, 641
TseFI	GTSAC	3 cut(s)	142, 187, 762
TseI	GCWGC	2 cut(s)	41, 830
Tsp45I	GTSAC	3 cut(s)	142, 187, 762
TspDTI	ATGAA	6 cut(s)	240, 358, 386, 462, 466, 525
TspGWI	ACGGA	1 cut(s)	620
TspRI	CASTG	5 cut(s)	122, 181, 310, 453, 641
VspI	ATTAAT	1 cut(s)	954
XapI	RAATTY	1 cut(s)	692
XbaI	TCTAGA	1 cut(s)	676
XhoI	CTCGAG	1 cut(s)	260
XmnI	GAANNNNTTC	1 cut(s)	846
XspI	CTAG	2 cut(s)	666, 677

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