Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr5

Orthogroup ID

OG0010170

Physical Location & Seq

Genomic Coordinates Forward (+)

12004699 .. 12007268

Gene Structure 2570 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000022776

Sequence Viewer

CDS Protein Promoter (2k)

Length: 408 bp

ATGGAAATGGTCATCTTGAATAACAACAACTCCAGCCTGCCCAAGATTCATCATGGAGGAGTCAAACAATTGAAAAGCTGTCATTCAGATTTGGATGAATATTGGAAAGAAAGGACACTTTCTAAGTTCCGGAAGCCAAATAATGAAGACCCAATGTTCTACCTTAGCCGAATTGAACACTCATTGCGTCTGTCTCCTTGTCTGCTCAGCCTTCGTCTACAAGATGCAGTTAAGGGAGAGCTTGAGAAGCTTTTCTTAGATAAGGTTATTTCGAATTTGGGACTCTGCATTTCTGTCTATGAAATCCAGTCCATTAAAGATTACTTTATCTTACCAAATGATGGCCATCCAACTCTAATGTCTGATTTTCAATTTGCAAATGGCAGTGTCACTGGGATTTATGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0000785 GO:0000790 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0005694 GO:0006139 GO:0006351 GO:0006352 GO:0006383 GO:0006384 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044451 GO:0044454 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rbc25 SHS2_Rpb7-N

Protein Analysis

136

Amino Acids

15.45

Weight (kDa)

6.5

Isoelectric Point (pI)

38.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SHS2_Rpb7-N	PF03876	59 - 115	3e-11	SHS2 domain found in N terminus of Rpb7p/Rpc25p/MJ0397

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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Publication-ready

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Orthologous Genes (Group: OG0010170)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06790 AT1G06790
fragaria_vesca	FvH4_1g22880
malus_domestica	MD08G1227600.v1.1
prunus_persica	Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.2G103200_v2.0.a1 Prupe.7G016800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0063451
rosa_laevigata	RLG00000022776 RLG00000035635
rosa_multiflora	Rmu_sc0016394.1_g000005
rosa_roxburghii	Rroxscaffold_1G00017270
rosa_rugosa	Rorug05G0357400
rosa_samantha	Rh5AG416500 Rh5BG431600 Rh5CG454900 Rh5DG445100
rosa_wichuraiana	Rw5G039120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	341
AccI	GTMKAC	1 cut(s)	217
AccIII	TCCGGA	1 cut(s)	129
AcoI	YGGCCR	1 cut(s)	343
AcsI	RAATTY	1 cut(s)	274
AfiI	CCNNNNNNNGG	1 cut(s)	341
AgsI	TTSAA	4 cut(s)	19, 73, 176, 371
AluBI	AGCT	3 cut(s)	78, 241, 250
AluI	AGCT	3 cut(s)	78, 241, 250
Alw26I	GTCTC	1 cut(s)	198
Aor13HI	TCCGGA	1 cut(s)	129
AoxI	GGCC	1 cut(s)	343
ApoI	RAATTY	1 cut(s)	274
Asp700I	GAANNNNTTC	1 cut(s)	251
AsuII	TTCGAA	1 cut(s)	272
BalI	TGGCCA	1 cut(s)	345
BbsI	GAAGAC	1 cut(s)	153
BccI	CCATC	2 cut(s)	335, 354
BcoDI	GTCTC	1 cut(s)	198
BlpI	GCTNAGC	1 cut(s)	206
BmrI	ACTGGG	1 cut(s)	402
BmsI	GCATC	1 cut(s)	214
BmuI	ACTGGG	1 cut(s)	402
BpiI	GAAGAC	1 cut(s)	153
BpmI	CTGGAG	1 cut(s)	16
Bpu10I	CCTNAGC	1 cut(s)	164
Bpu1102I	GCTNAGC	1 cut(s)	206
Bpu14I	TTCGAA	1 cut(s)	272
BpuEI	CTTGAG	1 cut(s)	263
BsaBI	GATNNNNATC	1 cut(s)	345
BsaWI	WCCGGW	1 cut(s)	129
BsaXI	ACNNNNNCTCC	2 cut(s)	14, 44
Bsc4I	CCNNNNNNNGG	1 cut(s)	341
Bse1I	ACTGG	2 cut(s)	307, 397
Bse3DI	GCAATG	1 cut(s)	182
Bse8I	GATNNNNATC	1 cut(s)	345
BseAI	TCCGGA	1 cut(s)	129
BseGI	GGATG	2 cut(s)	100, 346
BseJI	GATNNNNATC	1 cut(s)	345
BseLI	CCNNNNNNNGG	1 cut(s)	341
BseMI	GCAATG	1 cut(s)	182
BseMII	CTCAG	1 cut(s)	220
BseNI	ACTGG	2 cut(s)	307, 397
BseRI	GAGGAG	1 cut(s)	72
BshFI	GGCC	1 cut(s)	345
BsiSI	CCGG	1 cut(s)	130
BslFI	GGGAC	1 cut(s)	294
BslI	CCNNNNNNNGG	1 cut(s)	341
BsmAI	GTCTC	1 cut(s)	198
BsmFI	GGGAC	1 cut(s)	294
BsnI	GGCC	1 cut(s)	345
Bsp119I	TTCGAA	1 cut(s)	272
Bsp13I	TCCGGA	1 cut(s)	129
Bsp1720I	GCTNAGC	1 cut(s)	206
BspANI	GGCC	1 cut(s)	345
BspCNI	CTCAG	1 cut(s)	219
BspEI	TCCGGA	1 cut(s)	129
BspT104I	TTCGAA	1 cut(s)	272
BsrDI	GCAATG	1 cut(s)	182
BsrI	ACTGG	2 cut(s)	307, 397
BstBI	TTCGAA	1 cut(s)	272
BstC8I	GCNNGC	1 cut(s)	38
BstDEI	CTNAG	4 cut(s)	123, 164, 206, 256
BstF5I	GGATG	2 cut(s)	100, 346
BstMAI	GTCTC	1 cut(s)	198
BstMWI	GCNNNNNNNGC	1 cut(s)	247
BstV2I	GAAGAC	1 cut(s)	153
BsuRI	GGCC	1 cut(s)	345
BtsCI	GGATG	2 cut(s)	100, 346
BtsI	GCAGTG	1 cut(s)	391
BtsIMutI	CAGTG	2 cut(s)	390, 391
Cac8I	GCNNGC	1 cut(s)	38
CseI	GACGC	1 cut(s)	176
CviAII	CATG	1 cut(s)	53
CviJI	RGCY	8 cut(s)	36, 78, 136, 168, 210, 241, 250, 345
CviKI_1	RGCY	8 cut(s)	36, 78, 136, 168, 210, 241, 250, 345
DdeI	CTNAG	4 cut(s)	123, 164, 206, 256
EaeI	YGGCCR	1 cut(s)	343
FaeI	CATG	1 cut(s)	56
FaiI	YATR	3 cut(s)	54, 300, 402
FalI	AAGNNNNNCTT	2 cut(s)	239, 271
FaqI	GGGAC	1 cut(s)	294
FatI	CATG	1 cut(s)	52
FblI	GTMKAC	1 cut(s)	217
FokI	GGATG	2 cut(s)	107, 333
GsuI	CTGGAG	1 cut(s)	16
HaeIII	GGCC	1 cut(s)	345
HapII	CCGG	1 cut(s)	130
HgaI	GACGC	1 cut(s)	176
Hin1II	CATG	1 cut(s)	56
HindIII	AAGCTT	1 cut(s)	248
HinfI	GANTC	3 cut(s)	46, 60, 282
HpaII	CCGG	1 cut(s)	130
Hpy166II	GTNNAC	1 cut(s)	218
Hpy188I	TCNGA	2 cut(s)	88, 364
Hpy188III	TCNNGA	2 cut(s)	16, 130
Hpy8I	GTNNAC	1 cut(s)	218
HpyAV	CCTTC	1 cut(s)	221
HpyCH4V	TGCA	3 cut(s)	227, 288, 377
HpyF10VI	GCNNNNNNNGC	1 cut(s)	247
HpyF3I	CTNAG	4 cut(s)	123, 164, 206, 256
Hsp92II	CATG	1 cut(s)	56
Kpn2I	TCCGGA	1 cut(s)	129
LpnPI	CCDG	5 cut(s)	46, 50, 143, 320, 378
LweI	GCATC	1 cut(s)	214
MaeIII	GTNAC	1 cut(s)	388
MboII	GAAGA	1 cut(s)	158
MfeI	CAATTG	1 cut(s)	68
MlsI	TGGCCA	1 cut(s)	345
MluCI	AATT	4 cut(s)	68, 171, 274, 371
MluNI	TGGCCA	1 cut(s)	345
MlyI	GAGTC	2 cut(s)	69, 276
MmeI	TCCRAC	1 cut(s)	374
MnlI	CCTC	1 cut(s)	50
Mox20I	TGGCCA	1 cut(s)	345
MroI	TCCGGA	1 cut(s)	129
MroXI	GAANNNNTTC	1 cut(s)	251
MscI	TGGCCA	1 cut(s)	345
MseI	TTAA	2 cut(s)	231, 315
Msp20I	TGGCCA	1 cut(s)	345
MspI	CCGG	1 cut(s)	130
MunI	CAATTG	1 cut(s)	68
MwoI	GCNNNNNNNGC	1 cut(s)	247
NlaIII	CATG	1 cut(s)	56
NmuCI	GTSAC	1 cut(s)	388
NspV	TTCGAA	1 cut(s)	272
PdmI	GAANNNNTTC	1 cut(s)	251
PfeI	GAWTC	1 cut(s)	46
PflMI	CCANNNNNTGG	1 cut(s)	341
PleI	GAGTC	2 cut(s)	68, 276
PpsI	GAGTC	2 cut(s)	68, 276
SaqAI	TTAA	2 cut(s)	231, 315
SchI	GAGTC	2 cut(s)	69, 276
SetI	ASST	5 cut(s)	80, 165, 243, 252, 267
SfaNI	GCATC	1 cut(s)	214
SfuI	TTCGAA	1 cut(s)	272
SmlI	CTYRAG	1 cut(s)	242
SmoI	CTYRAG	1 cut(s)	242
Sse9I	AATT	4 cut(s)	68, 171, 274, 371
SspI	AATATT	1 cut(s)	101
TaqI	TCGA	1 cut(s)	272
TasI	AATT	4 cut(s)	68, 171, 274, 371
TfiI	GAWTC	1 cut(s)	46
Tru1I	TTAA	2 cut(s)	231, 315
Tru9I	TTAA	2 cut(s)	231, 315
TscAI	CASTG	2 cut(s)	391, 397
TseFI	GTSAC	1 cut(s)	388
Tsp45I	GTSAC	1 cut(s)	388
TspDTI	ATGAA	4 cut(s)	38, 111, 159, 315
TspRI	CASTG	2 cut(s)	391, 397
Van91I	CCANNNNNTGG	1 cut(s)	341
XapI	RAATTY	1 cut(s)	274
XmiI	GTMKAC	1 cut(s)	217
XmnI	GAANNNNTTC	1 cut(s)	251

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