Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0011440

Physical Location & Seq

Genomic Coordinates Forward (+)

31027450 .. 31035860

Gene Structure 8411 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG155300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1047 bp

ATGGCGGCGAACACAATGGTTAGATCCTTTCTTCAGGTTGCTGCCACAGAAGAGGTTGCTCCCCCTCTCAGAGTTGTTCAGATCGAAGGACTGGTTATCTTGAAGATAATCAAGCACTGCAAGGAGTTTGCACCGGCTCTGGTCACAGGCCAACTTCTTGGCTTGGATGTTGGCAGTGTTCTTGAAGTCACTAATTGTTTCCCCTTCCCGATTAGGGAGGAGGATGAAGAGATTGAAGCTGATGGTGCCAATTACCAGCTCGAGATGATGAGATGTTTGCGAGAGGTGAATGTTGACAATAACACTGTTGGATGGTACCAATCCGCAGTTTGTTTTAAACACAGGTACCAATCCACATTGTTGGGTTCTTTTCAAACGGTGGAGTTGATTGAGACATTCATGAACTACCAGGAAAATATTAGACGGTGTGTGTGCATCATTTATGATCCATTGAAATCCAATCAGGGAGTCTTAGCACTGAAGGCATTGAAGCTTTCTGATTCATTCATGGAGCTCTACCGCAGTAACAATTTTACAGGGGAGAAGTTGAGGGAGAAAAACCTTTCATGGGTGGATATCTTTGAGGAAATACCTATCAAAGTTTCAAACTCTGCACTTATTAGTGCATTTATGACGGAGTTGGAAGCTGATACACCTGTTATCCAGTGTGATTATGATCGTCTGCAATTATCAACTAGTCCATTTCTAGAGAGGAATATGGAATTTCTTATTGAGTGCATGGACGATTTGTCAATGGAACAGCAGAAGTTCCAATACTATTACAGAAACGTGTCACGCCAGCAAGCCCAACAGCAAGCATGGCTTCAAAAGAGAAGGACTGAGAACATGGGTCGGAAGGCTGCCGGAGAAGAACCGCTTCCTGAAGAGGATCCTTCGAACCCCATTTTCAAGCCACTCCCCGAGCCTTCACGGTTGGACAGCTTTCTGATAACAAATCAAATCTCAAACTACTGCAACCAAATTAATGGGGTTGCCGGACAGAGCTTCGGCAGATTATATTTGACGAAGGCTTTGCATGAGAACTGA

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

348

Amino Acids

39.95

Weight (kDa)

4.91

Isoelectric Point (pI)

52.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
JAB	PF01398	24 - 109	2.8e-15	JAB1/Mov34/MPN/PAD-1 ubiquitin protease
eIF3h_C	PF19445	154 - 347	2e-58	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	2 cut(s)	315, 345
AccB1I	GGYRCC	3 cut(s)	245, 315, 345
AciI	CCGC	4 cut(s)	5, 324, 520, 875
AclWI	GGATC	4 cut(s)	18, 440, 884, 897
AcsI	RAATTY	1 cut(s)	722
AcuI	CTGAAG	3 cut(s)	17, 500, 903
AfaI	GTAC	2 cut(s)	317, 347
AfiI	CCNNNNNNNGG	2 cut(s)	214, 568
AflIII	ACRYGT	1 cut(s)	789
AgsI	TTSAA	9 cut(s)	103, 185, 236, 374, 454, 490, 606, 827, 910
AhdI	GACNNNNNGTC	1 cut(s)	748
AhlI	ACTAGT	1 cut(s)	695
AjnI	CCWGG	1 cut(s)	408
AluBI	AGCT	7 cut(s)	239, 259, 493, 514, 647, 942, 1005
AluI	AGCT	7 cut(s)	239, 259, 493, 514, 647, 942, 1005
Alw21I	GWGCWC	1 cut(s)	516
Alw26I	GTCTC	1 cut(s)	386
AlwI	GGATC	4 cut(s)	18, 440, 884, 897
Ama87I	CYCGRG	2 cut(s)	260, 920
AoxI	GGCC	1 cut(s)	148
ApeKI	GCWGC	2 cut(s)	41, 860
ApoI	RAATTY	1 cut(s)	722
ArsI	GACNNNNNNTTYG	2 cut(s)	1015, 1047
AseI	ATTAAT	1 cut(s)	984
Asp700I	GAANNNNTTC	1 cut(s)	876
Asp718I	GGTACC	2 cut(s)	315, 345
AsuHPI	GGTGA	1 cut(s)	298
AsuII	TTCGAA	1 cut(s)	896
AvaI	CYCGRG	2 cut(s)	260, 920
BaeI	ACNNNNGTAYC	4 cut(s)	329, 362, 642, 675
BamHI	GGATCC	1 cut(s)	889
BanI	GGYRCC	3 cut(s)	245, 315, 345
BanII	GRGCYC	1 cut(s)	516
BarI	GAAGNNNNNNTAC	2 cut(s)	758, 790
Bbv12I	GWGCWC	1 cut(s)	516
BbvI	GCAGC	2 cut(s)	28, 847
BccI	CCATC	2 cut(s)	236, 306
BcgI	CGANNNNNNTGC	1 cut(s)	1015
BciT130I	CCWGG	1 cut(s)	410
BcoDI	GTCTC	1 cut(s)	386
BcuI	ACTAGT	1 cut(s)	695
BfaI	CTAG	2 cut(s)	696, 707
BisI	GCNGC	3 cut(s)	6, 42, 861
BlsI	GCNGC	3 cut(s)	7, 43, 862
Bme1390I	CCNGG	1 cut(s)	410
BmeRI	GACNNNNNGTC	1 cut(s)	748
BmeT110I	CYCGRG	2 cut(s)	260, 920
BmiI	GGNNCC	4 cut(s)	247, 317, 347, 891
BmrFI	CCNGG	1 cut(s)	410
BmsI	GCATC	1 cut(s)	444
Bpu14I	TTCGAA	1 cut(s)	896
BsaBI	GATNNNNATC	1 cut(s)	675
Bsc4I	CCNNNNNNNGG	2 cut(s)	214, 568
Bse118I	RCCGGY	1 cut(s)	133
Bse1I	ACTGG	2 cut(s)	96, 664
Bse8I	GATNNNNATC	1 cut(s)	675
BseBI	CCWGG	1 cut(s)	410
BseGI	GGATG	3 cut(s)	172, 229, 317
BseJI	GATNNNNATC	1 cut(s)	675
BseLI	CCNNNNNNNGG	2 cut(s)	214, 568
BseMII	CTCAG	2 cut(s)	82, 831
BseNI	ACTGG	2 cut(s)	96, 664
BseRI	GAGGAG	1 cut(s)	233
BseXI	GCAGC	2 cut(s)	28, 847
BsgI	GTGCAG	1 cut(s)	597
BshFI	GGCC	1 cut(s)	150
BshNI	GGYRCC	3 cut(s)	245, 315, 345
BsiHKAI	GWGCWC	1 cut(s)	516
BsiHKCI	CYCGRG	2 cut(s)	260, 920
BsiSI	CCGG	3 cut(s)	134, 864, 996
BslI	CCNNNNNNNGG	2 cut(s)	214, 568
BsmAI	GTCTC	1 cut(s)	386
BsnI	GGCC	1 cut(s)	150
BsoBI	CYCGRG	2 cut(s)	260, 920
Bsp119I	TTCGAA	1 cut(s)	896
Bsp1286I	GDGCHC	1 cut(s)	516
Bsp143I	GATC	5 cut(s)	23, 81, 445, 676, 889
BspACI	CCGC	4 cut(s)	5, 324, 520, 875
BspANI	GGCC	1 cut(s)	150
BspCNI	CTCAG	2 cut(s)	81, 832
BspHI	TCATGA	1 cut(s)	399
BspLI	GGNNCC	4 cut(s)	247, 317, 347, 891
BspPI	GGATC	4 cut(s)	18, 440, 884, 897
BspT104I	TTCGAA	1 cut(s)	896
BspT107I	GGYRCC	3 cut(s)	245, 315, 345
BsrFI	RCCGGY	1 cut(s)	133
BsrI	ACTGG	2 cut(s)	96, 664
BssAI	RCCGGY	1 cut(s)	133
BssMI	GATC	5 cut(s)	23, 81, 445, 676, 889
Bst2UI	CCWGG	1 cut(s)	410
Bst4CI	ACNGT	4 cut(s)	307, 379, 426, 933
Bst6I	CTCTTC	3 cut(s)	45, 222, 879
BstBI	TTCGAA	1 cut(s)	896
BstC8I	GCNNGC	3 cut(s)	800, 804, 816
BstDEI	CTNAG	3 cut(s)	68, 472, 840
BstF5I	GGATG	3 cut(s)	172, 229, 317
BstKTI	GATC	5 cut(s)	26, 84, 448, 679, 892
BstMAI	GTCTC	1 cut(s)	386
BstMBI	GATC	5 cut(s)	23, 81, 445, 676, 889
BstMWI	GCNNNNNNNGC	3 cut(s)	245, 482, 820
BstNI	CCWGG	1 cut(s)	410
BstSCI	CCNGG	1 cut(s)	408
BstV1I	GCAGC	2 cut(s)	28, 847
BstX2I	RGATCY	2 cut(s)	23, 889
BstXI	CCANNNNNNTGG	3 cut(s)	158, 361, 986
BstYI	RGATCY	2 cut(s)	23, 889
BsuRI	GGCC	1 cut(s)	150
BtsCI	GGATG	3 cut(s)	172, 229, 317
BtsI	GCAGTG	2 cut(s)	115, 181
BtsIMutI	CAGTG	5 cut(s)	115, 181, 303, 476, 671
Cac8I	GCNNGC	3 cut(s)	800, 804, 816
CciI	TCATGA	1 cut(s)	399
Cfr10I	RCCGGY	1 cut(s)	133
Csp6I	GTAC	2 cut(s)	316, 346
CviAII	CATG	7 cut(s)	400, 508, 567, 739, 819, 847, 1037
CviQI	GTAC	2 cut(s)	316, 346
DdeI	CTNAG	3 cut(s)	68, 472, 840
DpnI	GATC	5 cut(s)	25, 83, 447, 678, 891
DpnII	GATC	5 cut(s)	23, 81, 445, 676, 889
DraI	TTTAAA	1 cut(s)	337
DriI	GACNNNNNGTC	1 cut(s)	748
Eam1104I	CTCTTC	3 cut(s)	45, 222, 879
Eam1105I	GACNNNNNGTC	1 cut(s)	748
EarI	CTCTTC	3 cut(s)	45, 222, 879
Ecl136II	GAGCTC	1 cut(s)	514
Eco24I	GRGCYC	1 cut(s)	516
Eco32I	GATATC	1 cut(s)	577
Eco53kI	GAGCTC	1 cut(s)	514
Eco57I	CTGAAG	3 cut(s)	17, 500, 903
Eco88I	CYCGRG	2 cut(s)	260, 920
EcoICRI	GAGCTC	1 cut(s)	514
EcoRII	CCWGG	1 cut(s)	408
EcoRV	GATATC	1 cut(s)	577
EcoT38I	GRGCYC	1 cut(s)	516
FaeI	CATG	7 cut(s)	403, 511, 570, 742, 822, 850, 1040
FalI	AAGNNNNNCTT	4 cut(s)	807, 839, 861, 893
FatI	CATG	7 cut(s)	399, 507, 566, 738, 818, 846, 1036
Fnu4HI	GCNGC	3 cut(s)	6, 42, 861
FokI	GGATG	3 cut(s)	179, 236, 324
FriOI	GRGCYC	1 cut(s)	516
Fsp4HI	GCNGC	3 cut(s)	6, 42, 861
FspBI	CTAG	2 cut(s)	696, 707
GluI	GCNGC	3 cut(s)	6, 42, 861
HaeIII	GGCC	1 cut(s)	150
HapII	CCGG	3 cut(s)	134, 864, 996
Hin1II	CATG	7 cut(s)	403, 511, 570, 742, 822, 850, 1040
HincII	GTYRAC	1 cut(s)	295
HindII	GTYRAC	1 cut(s)	295
HindIII	AAGCTT	1 cut(s)	491
HinfI	GANTC	2 cut(s)	468, 500
HpaII	CCGG	3 cut(s)	134, 864, 996
HphI	GGTGA	1 cut(s)	298
Hpy166II	GTNNAC	1 cut(s)	295
Hpy188I	TCNGA	5 cut(s)	71, 81, 499, 855, 948
Hpy188III	TCNNGA	7 cut(s)	100, 182, 208, 262, 400, 707, 881
Hpy8I	GTNNAC	1 cut(s)	295
HpyAV	CCTTC	8 cut(s)	80, 214, 475, 828, 850, 903, 936, 1021
HpyCH4III	ACNGT	4 cut(s)	307, 379, 426, 933
HpyCH4IV	ACGT	1 cut(s)	789
HpyCH4V	TGCA	9 cut(s)	120, 131, 435, 614, 626, 685, 738, 975, 1036
HpyF10VI	GCNNNNNNNGC	3 cut(s)	245, 482, 820
HpyF3I	CTNAG	3 cut(s)	68, 472, 840
HpySE526I	ACGT	1 cut(s)	789
Hsp92II	CATG	7 cut(s)	403, 511, 570, 742, 822, 850, 1040
KpnI	GGTACC	2 cut(s)	319, 349
Kzo9I	GATC	5 cut(s)	23, 81, 445, 676, 889
LmnI	GCTCC	2 cut(s)	64, 511
Lsp1109I	GCAGC	2 cut(s)	28, 847
LweI	GCATC	1 cut(s)	444
MaeI	CTAG	2 cut(s)	696, 707
MaeII	ACGT	1 cut(s)	789
MaeIII	GTNAC	4 cut(s)	142, 187, 524, 792
MalI	GATC	5 cut(s)	25, 83, 447, 678, 891
MboI	GATC	5 cut(s)	23, 81, 445, 676, 889
MboII	GAAGA	6 cut(s)	23, 62, 115, 239, 881, 896
MflI	RGATCY	2 cut(s)	23, 889
MhlI	GDGCHC	1 cut(s)	516
MluCI	AATT	6 cut(s)	193, 250, 529, 686, 722, 981
MlyI	GAGTC	1 cut(s)	477
MmeI	TCCRAC	4 cut(s)	289, 621, 833, 915
MnlI	CCTC	9 cut(s)	46, 75, 211, 214, 277, 543, 577, 705, 880
MroXI	GAANNNNTTC	1 cut(s)	876
MseI	TTAA	2 cut(s)	336, 984
MspI	CCGG	3 cut(s)	134, 864, 996
MspR9I	CCNGG	1 cut(s)	410
MvaI	CCWGG	1 cut(s)	410
MwoI	GCNNNNNNNGC	3 cut(s)	245, 482, 820
NdeII	GATC	5 cut(s)	23, 81, 445, 676, 889
NlaIII	CATG	7 cut(s)	403, 511, 570, 742, 822, 850, 1040
NlaIV	GGNNCC	4 cut(s)	247, 317, 347, 891
NmuCI	GTSAC	3 cut(s)	142, 187, 792
NspV	TTCGAA	1 cut(s)	896
PaeR7I	CTCGAG	1 cut(s)	260
PagI	TCATGA	1 cut(s)	399
PdmI	GAANNNNTTC	1 cut(s)	876
PfeI	GAWTC	1 cut(s)	500
PkrI	GCNGC	3 cut(s)	7, 43, 862
PleI	GAGTC	1 cut(s)	476
PpsI	GAGTC	1 cut(s)	476
PshBI	ATTAAT	1 cut(s)	984
Psp124BI	GAGCTC	1 cut(s)	516
Psp6I	CCWGG	1 cut(s)	408
PspGI	CCWGG	1 cut(s)	408
PspN4I	GGNNCC	4 cut(s)	247, 317, 347, 891
PsuI	RGATCY	2 cut(s)	23, 889
RsaI	GTAC	2 cut(s)	317, 347
RsaNI	GTAC	2 cut(s)	316, 346
SacI	GAGCTC	1 cut(s)	516
SaqAI	TTAA	2 cut(s)	336, 984
SatI	GCNGC	3 cut(s)	6, 42, 861
Sau3AI	GATC	5 cut(s)	23, 81, 445, 676, 889
SchI	GAGTC	1 cut(s)	477
ScrFI	CCNGG	1 cut(s)	410
SduI	GDGCHC	1 cut(s)	516
SfaNI	GCATC	1 cut(s)	444
Sfr274I	CTCGAG	1 cut(s)	260
SfuI	TTCGAA	1 cut(s)	896
SlaI	CTCGAG	1 cut(s)	260
SmlI	CTYRAG	1 cut(s)	260
SmoI	CTYRAG	1 cut(s)	260
SpeI	ACTAGT	1 cut(s)	695
Sse9I	AATT	6 cut(s)	193, 250, 529, 686, 722, 981
SsiI	CCGC	4 cut(s)	5, 324, 520, 875
SspI	AATATT	1 cut(s)	418
SspMI	CTAG	2 cut(s)	696, 707
SstI	GAGCTC	1 cut(s)	516
StyD4I	CCNGG	1 cut(s)	408
TaaI	ACNGT	4 cut(s)	307, 379, 426, 933
TaiI	ACGT	1 cut(s)	792
TaqI	TCGA	3 cut(s)	84, 261, 896
TasI	AATT	6 cut(s)	193, 250, 529, 686, 722, 981
TauI	GCSGC	1 cut(s)	8
TfiI	GAWTC	1 cut(s)	500
Tru1I	TTAA	2 cut(s)	336, 984
Tru9I	TTAA	2 cut(s)	336, 984
TscAI	CASTG	5 cut(s)	122, 181, 310, 483, 671
TseFI	GTSAC	3 cut(s)	142, 187, 792
TseI	GCWGC	2 cut(s)	41, 860
Tsp45I	GTSAC	3 cut(s)	142, 187, 792
TspDTI	ATGAA	6 cut(s)	240, 388, 416, 492, 496, 555
TspGWI	ACGGA	1 cut(s)	650
TspRI	CASTG	5 cut(s)	122, 181, 310, 483, 671
VspI	ATTAAT	1 cut(s)	984
XapI	RAATTY	1 cut(s)	722
XbaI	TCTAGA	1 cut(s)	706
XhoI	CTCGAG	1 cut(s)	260
XmnI	GAANNNNTTC	1 cut(s)	876
XspI	CTAG	2 cut(s)	696, 707

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