Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr1

Orthogroup ID

OG0009690

Physical Location & Seq

Genomic Coordinates Forward (+)

41443250 .. 41443924

Gene Structure 675 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000002899

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGCCTCCCTCAGCCCTCGACGTCCTTTCATCTCTACAGATGGCTTATCCAATGTTGTTTGAGCTAGGACCATATTATTTTGATGCTGACAAGAATGAGACTGAGAAATCTTGGGTCGCTCATTGCGGGGTTTGGGAGTTCACTGCAGAAGAGGGCTTCATTTACATGCCTAAATGGATGATGCAGAATATGAACTTGCAAGAGGGAGACCTTGTGATGCTGCAAAATAAGAGTCTTTCGAAAGACACTCATGTTAAGCTGCAGCCCCATACCAAGGACTTCTTAGACATTCCCAACCCAAAAGCTATGTTGGAGATGGCACTAAAAAGCTTTTCATGTTTAACAACTGGGGACACTCTTTTGCTACCATATGAAAACAAGTACTATGTGGATGTCATTGAAACAAAGCCTTCAAATGCCATAGGCATTATTGACAGAGACTGTGAGGTTGAATTTGCATTGCCTCTTGACTATAAGGAACAGGAAAAGCTTGTTGATGCAGCATCTGTTCCGATAAACAAGGTGACATCAGCTGATGATCAAGTTGTGGAACCTAAATTTAGCGCTTTTACCAGAGCTGGGAGGCGGTTGGATGGCAAGCCTTTGCAGTATGAGCCAGCAACAGCTATTGCTTCTTCATTTGTCACCACCACCAACAATAATGCACAACCTTAG

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

225

Amino Acids

25.25

Weight (kDa)

4.67

Isoelectric Point (pI)

40.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UFD1_N1	PF03152	1 - 79	2.4e-22	Ubiquitin fusion degradation protein UFD1, N-terminal subdomain 1
UFD1_N2	PF24842	83 - 155	4.5e-27	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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Align Labels (Cladogram)

Image

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Orthologous Genes (Group: OG0009690)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g23530
rosa_chinensis	RchiOBHm_Chr7g0212281 RchiOBHm_Chr7g0212841
rosa_laevigata	RLG00000002866 RLG00000002899
rosa_multiflora	Rmu_sc0000394.1_g000048 Rmu_sc0001911.1_g000048 Rmu_sc0013698.1_g000013 Rmu_sc0042115.1_g000001
rosa_roxburghii	Rroxscaffold_3G00246520 Rroxscaffold_3G00246930
rosa_rugosa	Rorug07G0133300 Rorug07G0136900
rosa_samantha	Rh7AG265900 Rh7AG268500 Rh7BG264100 Rh7CG282800 Rh7CG287500 Rh7DG272800 Rh7DG276600
rosa_wichuraiana	Rw7G023200 Rw7G023320

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	24
AciI	CCGC	2 cut(s)	126, 586
AcsI	RAATTY	2 cut(s)	452, 557
AcyI	GRCGYC	1 cut(s)	21
AfaI	GTAC	1 cut(s)	383
AfeI	AGCGCT	1 cut(s)	565
AfiI	CCNNNNNNNGG	2 cut(s)	274, 579
AgsI	TTSAA	3 cut(s)	401, 414, 452
AluBI	AGCT	8 cut(s)	64, 259, 305, 330, 490, 533, 578, 626
AluI	AGCT	8 cut(s)	64, 259, 305, 330, 490, 533, 578, 626
Alw26I	GTCTC	3 cut(s)	92, 201, 432
AlwNI	CAGNNNCTG	2 cut(s)	441, 506
Aor51HI	AGCGCT	1 cut(s)	565
ApeKI	GCWGC	4 cut(s)	220, 259, 262, 500
ApoI	RAATTY	2 cut(s)	452, 557
ArsI	GACNNNNNNTTYG	2 cut(s)	217, 249
AspLEI	GCGC	1 cut(s)	566
AspS9I	GGNCC	1 cut(s)	68
AsuHPI	GGTGA	2 cut(s)	535, 637
AsuII	TTCGAA	1 cut(s)	239
AvaII	GGWCC	1 cut(s)	68
BbvCI	CCTCAGC	1 cut(s)	10
BbvI	GCAGC	4 cut(s)	207, 246, 274, 512
BccI	CCATC	3 cut(s)	34, 310, 587
BclI	TGATCA	1 cut(s)	538
BcoDI	GTCTC	3 cut(s)	92, 201, 432
BfaI	CTAG	1 cut(s)	65
BfmI	CTRYAG	3 cut(s)	35, 144, 260
BfoI	RGCGCY	1 cut(s)	567
BisI	GCNGC	4 cut(s)	221, 260, 263, 501
BlsI	GCNGC	4 cut(s)	222, 261, 264, 502
BmcAI	AGTACT	1 cut(s)	383
Bme18I	GGWCC	1 cut(s)	68
BmgT120I	GGNCC	1 cut(s)	68
BmiI	GGNNCC	1 cut(s)	552
BmrI	ACTGGG	1 cut(s)	357
BmsI	GCATC	5 cut(s)	73, 171, 207, 487, 512
BmuI	ACTGGG	1 cut(s)	357
Bpu10I	CCTNAGC	1 cut(s)	10
Bpu14I	TTCGAA	1 cut(s)	239
BsaHI	GRCGYC	1 cut(s)	21
BsaI	GGTCTC	1 cut(s)	201
BsaJI	CCNNGG	1 cut(s)	273
BsaXI	ACNNNNNCTCC	2 cut(s)	198, 228
Bsc4I	CCNNNNNNNGG	2 cut(s)	274, 579
Bse1I	ACTGG	1 cut(s)	352
Bse3DI	GCAATG	2 cut(s)	121, 458
BseDI	CCNNGG	1 cut(s)	273
BseGI	GGATG	3 cut(s)	183, 397, 598
BseLI	CCNNNNNNNGG	2 cut(s)	274, 579
BseMI	GCAATG	2 cut(s)	121, 458
BseMII	CTCAG	2 cut(s)	24, 93
BseNI	ACTGG	1 cut(s)	352
BseXI	GCAGC	4 cut(s)	207, 246, 274, 512
BseYI	CCCAGC	1 cut(s)	578
BslFI	GGGAC	1 cut(s)	365
BslI	CCNNNNNNNGG	2 cut(s)	274, 579
BsmAI	GTCTC	3 cut(s)	92, 201, 432
BsmFI	GGGAC	1 cut(s)	365
Bso31I	GGTCTC	1 cut(s)	201
Bsp119I	TTCGAA	1 cut(s)	239
Bsp143I	GATC	1 cut(s)	538
BspACI	CCGC	2 cut(s)	126, 586
BspCNI	CTCAG	2 cut(s)	23, 94
BspLI	GGNNCC	1 cut(s)	552
BspMAI	CTGCAG	2 cut(s)	148, 264
BspT104I	TTCGAA	1 cut(s)	239
BspTNI	GGTCTC	1 cut(s)	201
BsrDI	GCAATG	2 cut(s)	121, 458
BsrI	ACTGG	1 cut(s)	352
BssECI	CCNNGG	1 cut(s)	273
BssMI	GATC	1 cut(s)	538
BssNI	GRCGYC	1 cut(s)	21
BssT1I	CCWWGG	1 cut(s)	273
Bst4CI	ACNGT	1 cut(s)	443
Bst6I	CTCTTC	1 cut(s)	144
BstACI	GRCGYC	1 cut(s)	21
BstBI	TTCGAA	1 cut(s)	239
BstC8I	GCNNGC	2 cut(s)	599, 618
BstDEI	CTNAG	4 cut(s)	10, 102, 283, 672
BstF5I	GGATG	3 cut(s)	183, 397, 598
BstH2I	RGCGCY	1 cut(s)	567
BstHHI	GCGC	1 cut(s)	566
BstKTI	GATC	1 cut(s)	541
BstMAI	GTCTC	3 cut(s)	92, 201, 432
BstMBI	GATC	1 cut(s)	538
BstMWI	GCNNNNNNNGC	1 cut(s)	613
BstNSI	RCATGY	1 cut(s)	169
BstSFI	CTRYAG	3 cut(s)	35, 144, 260
BstV1I	GCAGC	4 cut(s)	207, 246, 274, 512
BtsCI	GGATG	3 cut(s)	183, 397, 598
BtsI	GCAGTG	1 cut(s)	141
BtsIMutI	CAGTG	1 cut(s)	141
Cac8I	GCNNGC	2 cut(s)	599, 618
CaiI	CAGNNNCTG	2 cut(s)	441, 506
CfoI	GCGC	1 cut(s)	566
Cfr13I	GGNCC	1 cut(s)	68
Csp6I	GTAC	1 cut(s)	382
CviAII	CATG	3 cut(s)	166, 251, 336
CviQI	GTAC	1 cut(s)	382
DdeI	CTNAG	4 cut(s)	10, 102, 283, 672
DpnI	GATC	1 cut(s)	540
DpnII	GATC	1 cut(s)	538
Eam1104I	CTCTTC	1 cut(s)	144
EarI	CTCTTC	1 cut(s)	144
Eco130I	CCWWGG	1 cut(s)	273
Eco31I	GGTCTC	1 cut(s)	201
Eco47I	GGWCC	1 cut(s)	68
Eco47III	AGCGCT	1 cut(s)	565
EcoT14I	CCWWGG	1 cut(s)	273
ErhI	CCWWGG	1 cut(s)	273
FaeI	CATG	3 cut(s)	169, 254, 339
FalI	AAGNNNNNCTT	2 cut(s)	266, 298
FaqI	GGGAC	1 cut(s)	365
FatI	CATG	3 cut(s)	165, 250, 335
FauI	CCCGC	1 cut(s)	119
FauNDI	CATATG	1 cut(s)	370
FbaI	TGATCA	1 cut(s)	538
Fnu4HI	GCNGC	4 cut(s)	221, 260, 263, 501
FokI	GGATG	3 cut(s)	190, 404, 605
Fsp4HI	GCNGC	4 cut(s)	221, 260, 263, 501
FspBI	CTAG	1 cut(s)	65
GlaI	GCGC	1 cut(s)	565
GluI	GCNGC	4 cut(s)	221, 260, 263, 501
GsaI	CCCAGC	1 cut(s)	582
HaeII	RGCGCY	1 cut(s)	567
HhaI	GCGC	1 cut(s)	566
Hin1I	GRCGYC	1 cut(s)	21
Hin1II	CATG	3 cut(s)	169, 254, 339
Hin6I	GCGC	1 cut(s)	564
HinP1I	GCGC	1 cut(s)	564
HindIII	AAGCTT	2 cut(s)	328, 488
HinfI	GANTC	1 cut(s)	232
HphI	GGTGA	2 cut(s)	535, 637
Hpy166II	GTNNAC	1 cut(s)	141
Hpy188I	TCNGA	1 cut(s)	513
Hpy188III	TCNNGA	1 cut(s)	467
Hpy8I	GTNNAC	1 cut(s)	141
Hpy99I	CGWCG	1 cut(s)	23
HpyAV	CCTTC	1 cut(s)	420
HpyCH4III	ACNGT	1 cut(s)	443
HpyCH4IV	ACGT	1 cut(s)	21
HpyCH4V	TGCA	9 cut(s)	146, 184, 199, 223, 262, 458, 500, 607, 665
HpyF10VI	GCNNNNNNNGC	1 cut(s)	613
HpyF3I	CTNAG	4 cut(s)	10, 102, 283, 672
HpySE526I	ACGT	1 cut(s)	21
Hsp92I	GRCGYC	1 cut(s)	21
Hsp92II	CATG	3 cut(s)	169, 254, 339
HspAI	GCGC	1 cut(s)	564
Ksp22I	TGATCA	1 cut(s)	538
Kzo9I	GATC	1 cut(s)	538
LpnPI	CCDG	5 cut(s)	333, 467, 564, 586, 630
Lsp1109I	GCAGC	4 cut(s)	207, 246, 274, 512
LweI	GCATC	5 cut(s)	73, 171, 207, 487, 512
MaeI	CTAG	1 cut(s)	65
MaeII	ACGT	1 cut(s)	21
MaeIII	GTNAC	2 cut(s)	523, 643
MalI	GATC	1 cut(s)	540
MboI	GATC	1 cut(s)	538
MboII	GAAGA	2 cut(s)	161, 627
MluCI	AATT	2 cut(s)	452, 557
MlyI	GAGTC	1 cut(s)	241
MmeI	TCCRAC	2 cut(s)	291, 570
MnlI	CCTC	8 cut(s)	15, 19, 26, 145, 196, 439, 474, 576
MseI	TTAA	2 cut(s)	255, 341
MslI	CAYNNNNRTG	1 cut(s)	164
MspA1I	CMGCKG	1 cut(s)	533
MwoI	GCNNNNNNNGC	1 cut(s)	613
NdeI	CATATG	1 cut(s)	370
NdeII	GATC	1 cut(s)	538
NlaIII	CATG	3 cut(s)	169, 254, 339
NlaIV	GGNNCC	1 cut(s)	552
NmuCI	GTSAC	2 cut(s)	523, 643
NspI	RCATGY	1 cut(s)	169
NspV	TTCGAA	1 cut(s)	239
PkrI	GCNGC	4 cut(s)	222, 261, 264, 502
PleI	GAGTC	1 cut(s)	240
PpsI	GAGTC	1 cut(s)	240
PspFI	CCCAGC	1 cut(s)	578
PspN4I	GGNNCC	1 cut(s)	552
PspPI	GGNCC	1 cut(s)	68
PstI	CTGCAG	2 cut(s)	148, 264
PstNI	CAGNNNCTG	2 cut(s)	441, 506
PvuII	CAGCTG	1 cut(s)	533
RsaI	GTAC	1 cut(s)	383
RsaNI	GTAC	1 cut(s)	382
RseI	CAYNNNNRTG	1 cut(s)	164
SaqAI	TTAA	2 cut(s)	255, 341
SatI	GCNGC	4 cut(s)	221, 260, 263, 501
Sau3AI	GATC	1 cut(s)	538
Sau96I	GGNCC	1 cut(s)	68
ScaI	AGTACT	1 cut(s)	383
SchI	GAGTC	1 cut(s)	241
SfaNI	GCATC	5 cut(s)	73, 171, 207, 487, 512
SfcI	CTRYAG	3 cut(s)	35, 144, 260
SfuI	TTCGAA	1 cut(s)	239
SinI	GGWCC	1 cut(s)	68
SmiMI	CAYNNNNRTG	1 cut(s)	164
Sse9I	AATT	2 cut(s)	452, 557
SsiI	CCGC	2 cut(s)	126, 586
SspMI	CTAG	1 cut(s)	65
StyI	CCWWGG	1 cut(s)	273
TaaI	ACNGT	1 cut(s)	443
TaiI	ACGT	1 cut(s)	24
TaqI	TCGA	2 cut(s)	18, 239
TasI	AATT	2 cut(s)	452, 557
TatI	WGTACW	1 cut(s)	381
Tru1I	TTAA	2 cut(s)	255, 341
Tru9I	TTAA	2 cut(s)	255, 341
TscAI	CASTG	1 cut(s)	148
TseFI	GTSAC	2 cut(s)	523, 643
TseI	GCWGC	4 cut(s)	220, 259, 262, 500
Tsp45I	GTSAC	2 cut(s)	523, 643
TspDTI	ATGAA	6 cut(s)	18, 148, 206, 324, 387, 627
TspRI	CASTG	1 cut(s)	148
VpaK11BI	GGWCC	1 cut(s)	68
XapI	RAATTY	2 cut(s)	452, 557
XceI	RCATGY	1 cut(s)	169
XspI	CTAG	1 cut(s)	65
ZraI	GACGTC	1 cut(s)	22
ZrmI	AGTACT	1 cut(s)	383

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