Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0007333

Physical Location & Seq

Genomic Coordinates Forward (+)

65669215 .. 65672054

Gene Structure 2840 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG471200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 849 bp

ATGAAATTTTCTTCTCCAGCATCTATGCACGTGGACTACCCTATGTTGTTTGAACTTAACAATGCTACTGCTGGACGAGTTACTCATTGTGGGGTCTTGGAATTTGTTGCTGATGAGGGCCTCATATATGTACCATACTGGATGATGGAAAACATGCTCCTACAAGAGGGAGACATTGTTCAAGTGAAGAACAAAAGCCTGGTAAAGGGAACCTATGTGAAGTTGCAGCCTCACACCAAGGACTTCCTTGATATTTCAAACCCCAAAGCCATTTTGGAGACTACATTGAGGAGCTACTCATGTTTGACCACTGGTGACACTATCATGGTTCCTTATAACAATAAGAAGTATTACATCAACATAGTTGAAGCAAAACCCTCATCTGCAATCAGTATCATTGAGACAGACTGTGAGGTTGATTTTGCCCCTCCTCTTGATTACGTGGAACCTGAAAAACCAACTCCGTCGACGTCATCTACTTTGCCAAAGAAGAGACCACAAGAAGCTGAAGAAGAACCAGTTCAAAAGGTTGCAAGGTTCAATCCATTTACAGGTTCAGCAAGGCGATTGGATGGAAAGCCTTCGACGGAATCAGTTGCACCAGTTTCCTCTCCCATACTTAAGCAGCACCAACTGGAGGGTGAAAACGGAGCCAAGGATTCCAAGCCATCAACTTCTGCTTCACGCCAACGTTCTGGAAAGCTTGTGTTTGGTTCAAATTCCAACCAGCCCACAAAGGAAGCCCCAAAAGCTGCTCCAAAGAAACAAGAGTCATCTGAGAAGGCAGAAGAGGAAAAAGAGACAAAGTTCCAAGCATTCACAGGGAAGAAGTATTCTCTGAAAGGGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001817 GO:0001818 GO:0002682 GO:0002683 GO:0002697 GO:0002698 GO:0002831 GO:0002832 GO:0003674 GO:0005102 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009966 GO:0009968 GO:0009987 GO:0010646 GO:0010648 GO:0012505 GO:0016020 GO:0019538 GO:0019899 GO:0019941 GO:0023051 GO:0023057 GO:0030163 GO:0031347 GO:0031348 GO:0031984 GO:0032101 GO:0032102 GO:0032479 GO:0032480 GO:0032991 GO:0034098 GO:0036501 GO:0039531 GO:0039532 GO:0039535 GO:0039536 GO:0042175 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043632 GO:0043900 GO:0043901 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0044877 GO:0045088 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050687 GO:0050688 GO:0050776 GO:0050789 GO:0050794 GO:0051117 GO:0051239 GO:0051241 GO:0051603 GO:0065007 GO:0071704 GO:0080134 GO:0098796 GO:0098827 GO:1901564 GO:1901565 GO:1901575 GO:1902531 GO:1902532

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

UFD1

Protein Analysis

282

Amino Acids

31.24

Weight (kDa)

7.64

Isoelectric Point (pI)

54.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	8 - 67	3.6e-23	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	69 - 144	2.1e-37	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 2

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0007333)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29070 AT2G29070 AT2G29070
fragaria_vesca	FvH4_3g36770 FvH4_3g36770
malus_domestica	MD03G1088700.v1.1 MD11G1097700.v1.1
prunus_persica	Prupe.6G073100_v2.0.a1 Prupe.6G073100_v2.0.a1
pyrus_communis	pycom03g07030 pycom11g08240
rosa_chinensis	RchiOBHm_Chr5g0065821
rosa_laevigata	RLG00000035819
rosa_multiflora	Rmu_sc0042868.1_g000003
rosa_roxburghii	Rroxscaffold_1G00015330
rosa_rugosa	Rorug05G0374000 Rorug05G0374000 Rorug05G0374000 Rorug05G0374000 Rorug05G0374000
rosa_samantha	Rh5AG432700 Rh5BG449000 Rh5CG471200 Rh5DG462500
rosa_wichuraiana	Rw5G040580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	336
AatII	GACGTC	1 cut(s)	473
AccI	GTMKAC	1 cut(s)	467
AclI	AACGTT	1 cut(s)	691
AcsI	RAATTY	3 cut(s)	5, 101, 718
AcuI	CTGAAG	1 cut(s)	528
AcvI	CACGTG	1 cut(s)	31
AcyI	GRCGYC	1 cut(s)	470
AfaI	GTAC	1 cut(s)	132
AfiI	CCNNNNNNNGG	4 cut(s)	166, 205, 551, 637
AflII	CTTAAG	1 cut(s)	620
AgsI	TTSAA	7 cut(s)	53, 182, 258, 368, 524, 541, 717
AjnI	CCWGG	1 cut(s)	198
AloI	GAACNNNNNNTCC	2 cut(s)	162, 194
AluBI	AGCT	4 cut(s)	294, 506, 703, 752
AluI	AGCT	4 cut(s)	294, 506, 703, 752
Alw26I	GTCTC	5 cut(s)	165, 272, 395, 487, 794
AoxI	GGCC	1 cut(s)	118
ApeKI	GCWGC	3 cut(s)	226, 625, 752
ApoI	RAATTY	3 cut(s)	5, 101, 718
Asp700I	GAANNNNTTC	2 cut(s)	519, 580
AspS9I	GGNCC	1 cut(s)	118
AsuHPI	GGTGA	2 cut(s)	326, 653
BbrPI	CACGTG	1 cut(s)	31
BbvI	GCAGC	3 cut(s)	238, 637, 739
BccI	CCATC	3 cut(s)	139, 566, 676
BciT130I	CCWGG	1 cut(s)	200
BcoDI	GTCTC	5 cut(s)	165, 272, 395, 487, 794
BfrI	CTTAAG	1 cut(s)	620
BisI	GCNGC	3 cut(s)	227, 626, 753
BlsI	GCNGC	3 cut(s)	228, 627, 754
Bme1390I	CCNGG	1 cut(s)	200
BmgT120I	GGNCC	1 cut(s)	118
BmiI	GGNNCC	4 cut(s)	211, 330, 447, 652
BmrFI	CCNGG	1 cut(s)	200
BmsI	GCATC	1 cut(s)	29
BpmI	CTGGAG	1 cut(s)	656
BsaAI	YACGTR	2 cut(s)	31, 442
BsaHI	GRCGYC	1 cut(s)	470
BsaI	GGTCTC	1 cut(s)	487
BsaJI	CCNNGG	2 cut(s)	237, 654
BsaXI	ACNNNNNCTCC	2 cut(s)	162, 192
Bsc4I	CCNNNNNNNGG	4 cut(s)	166, 205, 551, 637
Bse1I	ACTGG	5 cut(s)	143, 316, 518, 602, 639
BseBI	CCWGG	1 cut(s)	200
BseDI	CCNNGG	2 cut(s)	237, 654
BseGI	GGATG	2 cut(s)	147, 577
BseLI	CCNNNNNNNGG	4 cut(s)	166, 205, 551, 637
BseMII	CTCAG	1 cut(s)	768
BseNI	ACTGG	5 cut(s)	143, 316, 518, 602, 639
BseRI	GAGGAG	2 cut(s)	304, 420
BseXI	GCAGC	3 cut(s)	238, 637, 739
BshFI	GGCC	1 cut(s)	120
BslI	CCNNNNNNNGG	4 cut(s)	166, 205, 551, 637
BsmAI	GTCTC	5 cut(s)	165, 272, 395, 487, 794
BsmI	GAATGC	1 cut(s)	815
BsnI	GGCC	1 cut(s)	120
Bso31I	GGTCTC	1 cut(s)	487
BspANI	GGCC	1 cut(s)	120
BspCNI	CTCAG	1 cut(s)	769
BspLI	GGNNCC	4 cut(s)	211, 330, 447, 652
BspTI	CTTAAG	1 cut(s)	620
BspTNI	GGTCTC	1 cut(s)	487
BsrI	ACTGG	5 cut(s)	143, 316, 518, 602, 639
BssECI	CCNNGG	2 cut(s)	237, 654
BssNI	GRCGYC	1 cut(s)	470
BssT1I	CCWWGG	2 cut(s)	237, 654
Bst2UI	CCWGG	1 cut(s)	200
Bst4CI	ACNGT	1 cut(s)	410
Bst6I	CTCTTC	2 cut(s)	485, 783
BstACI	GRCGYC	1 cut(s)	470
BstAFI	CTTAAG	1 cut(s)	620
BstBAI	YACGTR	2 cut(s)	31, 442
BstDEI	CTNAG	1 cut(s)	777
BstENI	CCTNNNNNAGG	2 cut(s)	164, 203
BstF5I	GGATG	2 cut(s)	147, 577
BstMAI	GTCTC	5 cut(s)	165, 272, 395, 487, 794
BstMWI	GCNNNNNNNGC	1 cut(s)	749
BstNI	CCWGG	1 cut(s)	200
BstNSI	RCATGY	1 cut(s)	157
BstSCI	CCNGG	1 cut(s)	198
BstV1I	GCAGC	3 cut(s)	238, 637, 739
BstXI	CCANNNNNNTGG	1 cut(s)	695
BsuRI	GGCC	1 cut(s)	120
BtsCI	GGATG	2 cut(s)	147, 577
BtsIMutI	CAGTG	1 cut(s)	309
Cfr13I	GGNCC	1 cut(s)	118
Csp6I	GTAC	1 cut(s)	131
CviAII	CATG	3 cut(s)	154, 300, 325
CviQI	GTAC	1 cut(s)	131
DdeI	CTNAG	1 cut(s)	777
Eam1104I	CTCTTC	2 cut(s)	485, 783
EarI	CTCTTC	2 cut(s)	485, 783
Eco130I	CCWWGG	2 cut(s)	237, 654
Eco31I	GGTCTC	1 cut(s)	487
Eco57I	CTGAAG	1 cut(s)	528
Eco72I	CACGTG	1 cut(s)	31
EcoNI	CCTNNNNNAGG	2 cut(s)	164, 203
EcoO109I	RGGNCCY	1 cut(s)	118
EcoRII	CCWGG	1 cut(s)	198
EcoT14I	CCWWGG	2 cut(s)	237, 654
ErhI	CCWWGG	2 cut(s)	237, 654
FaeI	CATG	3 cut(s)	157, 303, 328
FatI	CATG	3 cut(s)	153, 299, 324
FblI	GTMKAC	1 cut(s)	467
Fnu4HI	GCNGC	3 cut(s)	227, 626, 753
FokI	GGATG	2 cut(s)	154, 584
Fsp4HI	GCNGC	3 cut(s)	227, 626, 753
GluI	GCNGC	3 cut(s)	227, 626, 753
GsuI	CTGGAG	1 cut(s)	656
HaeIII	GGCC	1 cut(s)	120
Hin1I	GRCGYC	1 cut(s)	470
Hin1II	CATG	3 cut(s)	157, 303, 328
HincII	GTYRAC	1 cut(s)	468
HindII	GTYRAC	1 cut(s)	468
HindIII	AAGCTT	1 cut(s)	701
HinfI	GANTC	3 cut(s)	590, 659, 770
HphI	GGTGA	2 cut(s)	326, 653
Hpy166II	GTNNAC	2 cut(s)	34, 468
Hpy188I	TCNGA	2 cut(s)	778, 840
Hpy188III	TCNNGA	2 cut(s)	434, 696
Hpy8I	GTNNAC	2 cut(s)	34, 468
Hpy99I	CGWCG	3 cut(s)	469, 472, 589
HpyAV	CCTTC	2 cut(s)	591, 775
HpyCH4III	ACNGT	1 cut(s)	410
HpyCH4IV	ACGT	4 cut(s)	30, 441, 470, 691
HpyCH4V	TGCA	5 cut(s)	28, 226, 386, 533, 599
HpyF10VI	GCNNNNNNNGC	1 cut(s)	749
HpyF3I	CTNAG	1 cut(s)	777
HpySE526I	ACGT	4 cut(s)	30, 441, 470, 691
Hsp92I	GRCGYC	1 cut(s)	470
Hsp92II	CATG	3 cut(s)	157, 303, 328
LmnI	GCTCC	4 cut(s)	162, 291, 650, 760
Lsp1109I	GCAGC	3 cut(s)	238, 637, 739
LweI	GCATC	1 cut(s)	29
MaeII	ACGT	4 cut(s)	30, 441, 470, 691
MaeIII	GTNAC	2 cut(s)	79, 314
MboII	GAAGA	7 cut(s)	3, 199, 502, 521, 524, 800, 838
MluCI	AATT	3 cut(s)	5, 101, 718
MlyI	GAGTC	1 cut(s)	779
MmeI	TCCRAC	1 cut(s)	747
MroXI	GAANNNNTTC	2 cut(s)	519, 580
MseI	TTAA	2 cut(s)	57, 621
MslI	CAYNNNNRTG	1 cut(s)	323
MspCI	CTTAAG	1 cut(s)	620
MspR9I	CCNGG	1 cut(s)	200
Mva1269I	GAATGC	1 cut(s)	815
MvaI	CCWGG	1 cut(s)	200
MwoI	GCNNNNNNNGC	1 cut(s)	749
NlaIII	CATG	3 cut(s)	157, 303, 328
NlaIV	GGNNCC	4 cut(s)	211, 330, 447, 652
NmuCI	GTSAC	1 cut(s)	314
NspI	RCATGY	1 cut(s)	157
PctI	GAATGC	1 cut(s)	815
PdmI	GAANNNNTTC	2 cut(s)	519, 580
PfeI	GAWTC	2 cut(s)	590, 659
PkrI	GCNGC	3 cut(s)	228, 627, 754
PleI	GAGTC	1 cut(s)	778
PmaCI	CACGTG	1 cut(s)	31
PmlI	CACGTG	1 cut(s)	31
PpsI	GAGTC	1 cut(s)	778
Ppu21I	YACGTR	2 cut(s)	31, 442
PsiI	TTATAA	1 cut(s)	336
Psp1406I	AACGTT	1 cut(s)	691
Psp6I	CCWGG	1 cut(s)	198
PspCI	CACGTG	1 cut(s)	31
PspGI	CCWGG	1 cut(s)	198
PspN4I	GGNNCC	4 cut(s)	211, 330, 447, 652
PspPI	GGNCC	1 cut(s)	118
RsaI	GTAC	1 cut(s)	132
RsaNI	GTAC	1 cut(s)	131
RseI	CAYNNNNRTG	1 cut(s)	323
SalI	GTCGAC	1 cut(s)	466
SaqAI	TTAA	2 cut(s)	57, 621
SatI	GCNGC	3 cut(s)	227, 626, 753
Sau96I	GGNCC	1 cut(s)	118
SchI	GAGTC	1 cut(s)	779
ScrFI	CCNGG	1 cut(s)	200
SfaNI	GCATC	1 cut(s)	29
SgrDI	CGTCGACG	1 cut(s)	466
SmiMI	CAYNNNNRTG	1 cut(s)	323
SmlI	CTYRAG	1 cut(s)	620
SmoI	CTYRAG	1 cut(s)	620
Sse9I	AATT	3 cut(s)	5, 101, 718
StyD4I	CCNGG	1 cut(s)	198
StyI	CCWWGG	2 cut(s)	237, 654
TaaI	ACNGT	1 cut(s)	410
TaiI	ACGT	4 cut(s)	33, 444, 473, 694
TaqI	TCGA	2 cut(s)	467, 584
TasI	AATT	3 cut(s)	5, 101, 718
TfiI	GAWTC	2 cut(s)	590, 659
Tru1I	TTAA	2 cut(s)	57, 621
Tru9I	TTAA	2 cut(s)	57, 621
TscAI	CASTG	1 cut(s)	316
TseFI	GTSAC	1 cut(s)	314
TseI	GCWGC	3 cut(s)	226, 625, 752
Tsp45I	GTSAC	1 cut(s)	314
TspDTI	ATGAA	1 cut(s)	17
TspGWI	ACGGA	3 cut(s)	453, 602, 663
TspRI	CASTG	1 cut(s)	316
Vha464I	CTTAAG	1 cut(s)	620
XagI	CCTNNNNNAGG	2 cut(s)	164, 203
XapI	RAATTY	3 cut(s)	5, 101, 718
XceI	RCATGY	1 cut(s)	157
XcmI	CCANNNNNNNNNTGG	1 cut(s)	271
XmiI	GTMKAC	1 cut(s)	467
XmnI	GAANNNNTTC	2 cut(s)	519, 580
ZraI	GACGTC	1 cut(s)	471

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