Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0007333

Physical Location & Seq

Genomic Coordinates Forward (+)

73349775 .. 73352610

Gene Structure 2836 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG462500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGATGGAAAACATGCTCCTACAAGAGGGAGACATTGTTCAAGTGAAGAACAAAAGCCTGGTAAAGGGAACCTATGTGAAGTTGCAGCCTCACACCAAGGACTTCCTTGATATTTCAAACCCCAAAGCCATTTTGGAGACTACATTGAGGAGCTACTCATGTTTGACCACTGGTGACACTATCATGGTTCCTTATAACAATAAGAAGTATTACATCAACATAGTTGAAGCAAAACCCTCATCTGCAATCAGTATCATTGAGACAGACTGTGAGGTTGATTTTGCCCCTCCTCTTGATTACGTGGAACCTGAAAAACCAACTCCGTCAACGTCATCTACTTTGCCAAAGAAGAGACCACAAGAAGCTGAAGAAGAACCAGTTCAAAAGGTTGCAAGGTTCAATCCATTTACAGGTTCAGCAAGGCGATTGGATGGAAAGCCTTCGACGGAATCAGTTGCACCAGTTTCCTCTCCCATACTTAAGCAGCACCAACTGGAGGGTGAAAACGGAGCCAAGGATTCCAAGCCATCAACTTCTGCTTCACGCCAACGTTCTGGAAAGCTTGTGTTTGGTTCAAATTCCAACCAGCCCACAAAGGAAGCCCCAAAAGCTGCTCCAAAGAAACAAGAGTCATCTGAGAAGGCAGAAGAGGAAAAAGAGACAAAGTTCCAAGCATTCACAGGGAAGAAGTATTCTCTGAAAGGGTGA

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

235

Amino Acids

25.95

Weight (kDa)

8.83

Isoelectric Point (pI)

57.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N2	PF24842	22 - 97	1.5e-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

Species Filter

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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)	195
AclI	AACGTT	1 cut(s)	550
AcsI	RAATTY	1 cut(s)	577
AcuI	CTGAAG	1 cut(s)	387
AfiI	CCNNNNNNNGG	4 cut(s)	25, 64, 410, 496
AflII	CTTAAG	1 cut(s)	479
AgsI	TTSAA	6 cut(s)	41, 117, 227, 383, 400, 576
AjnI	CCWGG	1 cut(s)	57
AloI	GAACNNNNNNTCC	2 cut(s)	21, 53
AluBI	AGCT	4 cut(s)	153, 365, 562, 611
AluI	AGCT	4 cut(s)	153, 365, 562, 611
Alw26I	GTCTC	5 cut(s)	24, 131, 254, 346, 653
ApeKI	GCWGC	3 cut(s)	85, 484, 611
ApoI	RAATTY	1 cut(s)	577
Asp700I	GAANNNNTTC	2 cut(s)	378, 439
AsuHPI	GGTGA	2 cut(s)	185, 512
BbvI	GCAGC	3 cut(s)	97, 496, 598
BccI	CCATC	2 cut(s)	425, 535
BciT130I	CCWGG	1 cut(s)	59
BcoDI	GTCTC	5 cut(s)	24, 131, 254, 346, 653
BfrI	CTTAAG	1 cut(s)	479
BisI	GCNGC	3 cut(s)	86, 485, 612
BlsI	GCNGC	3 cut(s)	87, 486, 613
Bme1390I	CCNGG	1 cut(s)	59
BmiI	GGNNCC	4 cut(s)	70, 189, 306, 511
BmrFI	CCNGG	1 cut(s)	59
BpmI	CTGGAG	1 cut(s)	515
BsaAI	YACGTR	1 cut(s)	301
BsaI	GGTCTC	1 cut(s)	346
BsaJI	CCNNGG	2 cut(s)	96, 513
BsaXI	ACNNNNNCTCC	2 cut(s)	21, 51
Bsc4I	CCNNNNNNNGG	4 cut(s)	25, 64, 410, 496
Bse1I	ACTGG	4 cut(s)	175, 377, 461, 498
BseBI	CCWGG	1 cut(s)	59
BseDI	CCNNGG	2 cut(s)	96, 513
BseGI	GGATG	1 cut(s)	436
BseLI	CCNNNNNNNGG	4 cut(s)	25, 64, 410, 496
BseMII	CTCAG	1 cut(s)	627
BseNI	ACTGG	4 cut(s)	175, 377, 461, 498
BseRI	GAGGAG	2 cut(s)	163, 279
BseXI	GCAGC	3 cut(s)	97, 496, 598
BslI	CCNNNNNNNGG	4 cut(s)	25, 64, 410, 496
BsmAI	GTCTC	5 cut(s)	24, 131, 254, 346, 653
BsmI	GAATGC	1 cut(s)	674
Bso31I	GGTCTC	1 cut(s)	346
BspCNI	CTCAG	1 cut(s)	628
BspLI	GGNNCC	4 cut(s)	70, 189, 306, 511
BspTI	CTTAAG	1 cut(s)	479
BspTNI	GGTCTC	1 cut(s)	346
BsrI	ACTGG	4 cut(s)	175, 377, 461, 498
BssECI	CCNNGG	2 cut(s)	96, 513
BssT1I	CCWWGG	2 cut(s)	96, 513
Bst2UI	CCWGG	1 cut(s)	59
Bst4CI	ACNGT	1 cut(s)	269
Bst6I	CTCTTC	2 cut(s)	344, 642
BstAFI	CTTAAG	1 cut(s)	479
BstBAI	YACGTR	1 cut(s)	301
BstDEI	CTNAG	1 cut(s)	636
BstENI	CCTNNNNNAGG	2 cut(s)	23, 62
BstF5I	GGATG	1 cut(s)	436
BstMAI	GTCTC	5 cut(s)	24, 131, 254, 346, 653
BstMWI	GCNNNNNNNGC	1 cut(s)	608
BstNI	CCWGG	1 cut(s)	59
BstNSI	RCATGY	1 cut(s)	16
BstSCI	CCNGG	1 cut(s)	57
BstV1I	GCAGC	3 cut(s)	97, 496, 598
BstXI	CCANNNNNNTGG	1 cut(s)	554
BtsCI	GGATG	1 cut(s)	436
BtsIMutI	CAGTG	1 cut(s)	168
CviAII	CATG	3 cut(s)	13, 159, 184
DdeI	CTNAG	1 cut(s)	636
Eam1104I	CTCTTC	2 cut(s)	344, 642
EarI	CTCTTC	2 cut(s)	344, 642
Eco130I	CCWWGG	2 cut(s)	96, 513
Eco31I	GGTCTC	1 cut(s)	346
Eco57I	CTGAAG	1 cut(s)	387
EcoNI	CCTNNNNNAGG	2 cut(s)	23, 62
EcoRII	CCWGG	1 cut(s)	57
EcoT14I	CCWWGG	2 cut(s)	96, 513
ErhI	CCWWGG	2 cut(s)	96, 513
FaeI	CATG	3 cut(s)	16, 162, 187
FaiI	YATR	7 cut(s)	14, 75, 160, 185, 195, 221, 476
FatI	CATG	3 cut(s)	12, 158, 183
Fnu4HI	GCNGC	3 cut(s)	86, 485, 612
FokI	GGATG	1 cut(s)	443
Fsp4HI	GCNGC	3 cut(s)	86, 485, 612
GluI	GCNGC	3 cut(s)	86, 485, 612
GsuI	CTGGAG	1 cut(s)	515
Hin1II	CATG	3 cut(s)	16, 162, 187
HincII	GTYRAC	1 cut(s)	327
HindII	GTYRAC	1 cut(s)	327
HindIII	AAGCTT	1 cut(s)	560
HinfI	GANTC	3 cut(s)	449, 518, 629
HphI	GGTGA	2 cut(s)	185, 512
Hpy166II	GTNNAC	1 cut(s)	327
Hpy188I	TCNGA	2 cut(s)	637, 699
Hpy188III	TCNNGA	2 cut(s)	293, 555
Hpy8I	GTNNAC	1 cut(s)	327
Hpy99I	CGWCG	1 cut(s)	448
HpyAV	CCTTC	2 cut(s)	450, 634
HpyCH4III	ACNGT	1 cut(s)	269
HpyCH4IV	ACGT	3 cut(s)	300, 329, 550
HpyCH4V	TGCA	4 cut(s)	85, 245, 392, 458
HpyF10VI	GCNNNNNNNGC	1 cut(s)	608
HpyF3I	CTNAG	1 cut(s)	636
HpySE526I	ACGT	3 cut(s)	300, 329, 550
Hsp92II	CATG	3 cut(s)	16, 162, 187
LmnI	GCTCC	4 cut(s)	21, 150, 509, 619
Lsp1109I	GCAGC	3 cut(s)	97, 496, 598
MaeII	ACGT	3 cut(s)	300, 329, 550
MaeIII	GTNAC	1 cut(s)	173
MboII	GAAGA	6 cut(s)	58, 361, 380, 383, 659, 697
MluCI	AATT	1 cut(s)	577
MlyI	GAGTC	1 cut(s)	638
MmeI	TCCRAC	1 cut(s)	606
MroXI	GAANNNNTTC	2 cut(s)	378, 439
MseI	TTAA	1 cut(s)	480
MslI	CAYNNNNRTG	1 cut(s)	182
MspCI	CTTAAG	1 cut(s)	479
MspR9I	CCNGG	1 cut(s)	59
Mva1269I	GAATGC	1 cut(s)	674
MvaI	CCWGG	1 cut(s)	59
MwoI	GCNNNNNNNGC	1 cut(s)	608
NlaIII	CATG	3 cut(s)	16, 162, 187
NlaIV	GGNNCC	4 cut(s)	70, 189, 306, 511
NmuCI	GTSAC	1 cut(s)	173
NspI	RCATGY	1 cut(s)	16
PctI	GAATGC	1 cut(s)	674
PdmI	GAANNNNTTC	2 cut(s)	378, 439
PfeI	GAWTC	2 cut(s)	449, 518
PkrI	GCNGC	3 cut(s)	87, 486, 613
PleI	GAGTC	1 cut(s)	637
PpsI	GAGTC	1 cut(s)	637
Ppu21I	YACGTR	1 cut(s)	301
PsiI	TTATAA	1 cut(s)	195
Psp1406I	AACGTT	1 cut(s)	550
Psp6I	CCWGG	1 cut(s)	57
PspGI	CCWGG	1 cut(s)	57
PspN4I	GGNNCC	4 cut(s)	70, 189, 306, 511
RseI	CAYNNNNRTG	1 cut(s)	182
SaqAI	TTAA	1 cut(s)	480
SatI	GCNGC	3 cut(s)	86, 485, 612
SchI	GAGTC	1 cut(s)	638
ScrFI	CCNGG	1 cut(s)	59
SmiMI	CAYNNNNRTG	1 cut(s)	182
SmlI	CTYRAG	1 cut(s)	479
SmoI	CTYRAG	1 cut(s)	479
Sse9I	AATT	1 cut(s)	577
StyD4I	CCNGG	1 cut(s)	57
StyI	CCWWGG	2 cut(s)	96, 513
TaaI	ACNGT	1 cut(s)	269
TaiI	ACGT	3 cut(s)	303, 332, 553
TaqI	TCGA	1 cut(s)	443
TasI	AATT	1 cut(s)	577
TfiI	GAWTC	2 cut(s)	449, 518
Tru1I	TTAA	1 cut(s)	480
Tru9I	TTAA	1 cut(s)	480
TscAI	CASTG	1 cut(s)	175
TseFI	GTSAC	1 cut(s)	173
TseI	GCWGC	3 cut(s)	85, 484, 611
Tsp45I	GTSAC	1 cut(s)	173
TspGWI	ACGGA	3 cut(s)	312, 461, 522
TspRI	CASTG	1 cut(s)	175
Vha464I	CTTAAG	1 cut(s)	479
XagI	CCTNNNNNAGG	2 cut(s)	23, 62
XapI	RAATTY	1 cut(s)	577
XceI	RCATGY	1 cut(s)	16
XcmI	CCANNNNNNNNNTGG	1 cut(s)	130
XmnI	GAANNNNTTC	2 cut(s)	378, 439

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