Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr10

Orthogroup ID

OG0004203

Physical Location & Seq

Genomic Coordinates Reverse (-)

11195717 .. 11198028

Gene Structure 2312 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD10G1078400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 324 bp

ATGGAACACGGGTCGTTGACTGATCCCAGCCAATCCACATTTTCTTTGGTTGACGAGGATCACACATTTGCAAATGCCGTCAGGTTCACCTTGAACCAGGATCCAAGGACAAAATTTTGTGGGTACAGCATTCCTCATCCATCGGATAACCGAGTTAATATTAGAATCCAGACAACAGGTGATGCAGCAAAAACCGTATTCACAGATTCATGTCAGGATCTCATGGTGATGTGCCAACACGTGAGGAGCACTTTTGACAAGGCTGTTGTTGATTTTCGAATGAGTAAATCCGTAAATGGCATGGATATCGACTCAAATAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

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

Pfam Domains

Protein Families

RNA_pol_L_2

Protein Analysis

108

Amino Acids

11.99

Weight (kDa)

5.36

Isoelectric Point (pI)

35.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L_2	PF13656	12 - 83	1.6e-25	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_L	PF01193	13 - 75	9.2e-08	RNA polymerase Rpb3/Rpb11 dimerisation domain

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)

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Orthologous Genes (Group: OG0004203)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G29540 AT2G29540 AT2G29540
fragaria_vesca	FvH4_6g26980 FvH4_7g06540
malus_domestica	MD10G1078400.v1.1
prunus_persica	Prupe.2G047700_v2.0.a1 Prupe.2G047700_v2.0.a1 Prupe.3G125300_v2.0.a1 Prupe.3G125300_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0334971 RchiOBHm_Chr2g0128821
rosa_laevigata	RLG00000019027
rosa_multiflora	Rmu_sc0007061.1_g000007 Rmu_sc0009556.1_g000001
rosa_roxburghii	Rroxscaffold_2G00115240 Rroxscaffold_4G00316330
rosa_rugosa	Rorug01G0118200 Rorug02G0281300 Rorug02G0281400 Rorug02G0281500 Rorug02G0281600 Rorug02G0281600
rosa_samantha	Rh1AG141500 Rh1BG110000 Rh1CG133400 Rh1DG146100 Rh2AG334100 Rh2BG342100 Rh2CG321000 Rh2DG358800
rosa_wichuraiana	Rw1G011740 Rw2G027000

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	5 cut(s)	17, 66, 95, 108, 225
AcsI	RAATTY	1 cut(s)	113
AcvI	CACGTG	1 cut(s)	241
AfaI	GTAC	1 cut(s)	125
AflIII	ACRYGT	1 cut(s)	238
AgsI	TTSAA	1 cut(s)	94
AjnI	CCWGG	1 cut(s)	96
Alw21I	GWGCWC	1 cut(s)	251
AlwI	GGATC	5 cut(s)	17, 66, 95, 108, 225
ApeKI	GCWGC	1 cut(s)	185
ApoI	RAATTY	1 cut(s)	113
AsuHPI	GGTGA	3 cut(s)	79, 191, 238
AsuII	TTCGAA	1 cut(s)	277
BamHI	GGATCC	1 cut(s)	100
BbrPI	CACGTG	1 cut(s)	241
Bbv12I	GWGCWC	1 cut(s)	251
BbvI	GCAGC	1 cut(s)	197
BccI	CCATC	1 cut(s)	148
BceAI	ACGGC	1 cut(s)	62
BcgI	CGANNNNNNTGC	2 cut(s)	289, 323
BciT130I	CCWGG	1 cut(s)	98
BisI	GCNGC	1 cut(s)	186
BlsI	GCNGC	1 cut(s)	187
Bme1390I	CCNGG	1 cut(s)	98
BmiI	GGNNCC	1 cut(s)	102
BmrFI	CCNGG	1 cut(s)	98
BmsI	GCATC	1 cut(s)	172
Bpu14I	TTCGAA	1 cut(s)	277
BsaAI	YACGTR	1 cut(s)	241
BsaJI	CCNNGG	1 cut(s)	104
BseBI	CCWGG	1 cut(s)	98
BseDI	CCNNGG	1 cut(s)	104
BseGI	GGATG	1 cut(s)	136
BseRI	GAGGAG	1 cut(s)	259
BseXI	GCAGC	1 cut(s)	197
BseYI	CCCAGC	1 cut(s)	26
BsiHKAI	GWGCWC	1 cut(s)	251
BsmI	GAATGC	1 cut(s)	129
Bsp119I	TTCGAA	1 cut(s)	277
Bsp1286I	GDGCHC	1 cut(s)	251
Bsp143I	GATC	4 cut(s)	22, 58, 100, 217
BspLI	GGNNCC	1 cut(s)	102
BspPI	GGATC	5 cut(s)	17, 66, 95, 108, 225
BspT104I	TTCGAA	1 cut(s)	277
BssECI	CCNNGG	1 cut(s)	104
BssMI	GATC	4 cut(s)	22, 58, 100, 217
BssT1I	CCWWGG	1 cut(s)	104
Bst2UI	CCWGG	1 cut(s)	98
Bst4CI	ACNGT	1 cut(s)	196
BstBAI	YACGTR	1 cut(s)	241
BstBI	TTCGAA	1 cut(s)	277
BstF5I	GGATG	1 cut(s)	136
BstKTI	GATC	4 cut(s)	25, 61, 103, 220
BstMBI	GATC	4 cut(s)	22, 58, 100, 217
BstNI	CCWGG	1 cut(s)	98
BstSCI	CCNGG	1 cut(s)	96
BstV1I	GCAGC	1 cut(s)	197
BstX2I	RGATCY	2 cut(s)	100, 217
BstYI	RGATCY	2 cut(s)	100, 217
BtsCI	GGATG	1 cut(s)	136
Csp6I	GTAC	1 cut(s)	124
CviAII	CATG	3 cut(s)	210, 223, 301
CviJI	RGCY	2 cut(s)	30, 263
CviKI_1	RGCY	2 cut(s)	30, 263
CviQI	GTAC	1 cut(s)	124
DpnI	GATC	4 cut(s)	24, 60, 102, 219
DpnII	GATC	4 cut(s)	22, 58, 100, 217
Eco130I	CCWWGG	1 cut(s)	104
Eco32I	GATATC	1 cut(s)	307
Eco72I	CACGTG	1 cut(s)	241
EcoRII	CCWGG	1 cut(s)	96
EcoRV	GATATC	1 cut(s)	307
EcoT14I	CCWWGG	1 cut(s)	104
ErhI	CCWWGG	1 cut(s)	104
FaeI	CATG	3 cut(s)	213, 226, 304
FaiI	YATR	3 cut(s)	211, 224, 302
FatI	CATG	3 cut(s)	209, 222, 300
Fnu4HI	GCNGC	1 cut(s)	186
FokI	GGATG	1 cut(s)	123
Fsp4HI	GCNGC	1 cut(s)	186
GluI	GCNGC	1 cut(s)	186
GsaI	CCCAGC	1 cut(s)	30
Hin1II	CATG	3 cut(s)	213, 226, 304
HincII	GTYRAC	2 cut(s)	18, 52
HindII	GTYRAC	2 cut(s)	18, 52
HinfI	GANTC	3 cut(s)	165, 206, 311
HphI	GGTGA	3 cut(s)	79, 191, 238
Hpy166II	GTNNAC	3 cut(s)	18, 52, 87
Hpy188I	TCNGA	1 cut(s)	145
Hpy188III	TCNNGA	2 cut(s)	169, 215
Hpy8I	GTNNAC	3 cut(s)	18, 52, 87
HpyCH4III	ACNGT	1 cut(s)	196
HpyCH4IV	ACGT	1 cut(s)	240
HpyCH4V	TGCA	2 cut(s)	71, 185
HpySE526I	ACGT	1 cut(s)	240
Hsp92II	CATG	3 cut(s)	213, 226, 304
Kzo9I	GATC	4 cut(s)	22, 58, 100, 217
LmnI	GCTCC	1 cut(s)	246
LpnPI	CCDG	7 cut(s)	40, 67, 83, 110, 162, 182, 200
Lsp1109I	GCAGC	1 cut(s)	197
LweI	GCATC	1 cut(s)	172
MaeII	ACGT	1 cut(s)	240
MalI	GATC	4 cut(s)	24, 60, 102, 219
MboI	GATC	4 cut(s)	22, 58, 100, 217
MflI	RGATCY	2 cut(s)	100, 217
MhlI	GDGCHC	1 cut(s)	251
MluCI	AATT	1 cut(s)	113
MlyI	GAGTC	1 cut(s)	305
MnlI	CCTC	3 cut(s)	49, 144, 237
MseI	TTAA	1 cut(s)	156
MslI	CAYNNNNRTG	1 cut(s)	227
MspR9I	CCNGG	1 cut(s)	98
Mva1269I	GAATGC	1 cut(s)	129
MvaI	CCWGG	1 cut(s)	98
NdeII	GATC	4 cut(s)	22, 58, 100, 217
NlaIII	CATG	3 cut(s)	213, 226, 304
NlaIV	GGNNCC	1 cut(s)	102
NspV	TTCGAA	1 cut(s)	277
PctI	GAATGC	1 cut(s)	129
PfeI	GAWTC	2 cut(s)	165, 206
PkrI	GCNGC	1 cut(s)	187
PleI	GAGTC	1 cut(s)	305
PmaCI	CACGTG	1 cut(s)	241
PmlI	CACGTG	1 cut(s)	241
PpsI	GAGTC	1 cut(s)	305
Ppu21I	YACGTR	1 cut(s)	241
Psp6I	CCWGG	1 cut(s)	96
PspCI	CACGTG	1 cut(s)	241
PspFI	CCCAGC	1 cut(s)	26
PspGI	CCWGG	1 cut(s)	96
PspN4I	GGNNCC	1 cut(s)	102
PsuI	RGATCY	2 cut(s)	100, 217
RsaI	GTAC	1 cut(s)	125
RsaNI	GTAC	1 cut(s)	124
RseI	CAYNNNNRTG	1 cut(s)	227
SaqAI	TTAA	1 cut(s)	156
SatI	GCNGC	1 cut(s)	186
Sau3AI	GATC	4 cut(s)	22, 58, 100, 217
SchI	GAGTC	1 cut(s)	305
ScrFI	CCNGG	1 cut(s)	98
SduI	GDGCHC	1 cut(s)	251
SetI	ASST	4 cut(s)	86, 92, 181, 243
SfaNI	GCATC	1 cut(s)	172
SfuI	TTCGAA	1 cut(s)	277
SmiMI	CAYNNNNRTG	1 cut(s)	227
Sse9I	AATT	1 cut(s)	113
SspI	AATATT	1 cut(s)	160
StyD4I	CCNGG	1 cut(s)	96
StyI	CCWWGG	1 cut(s)	104
TaaI	ACNGT	1 cut(s)	196
TaiI	ACGT	1 cut(s)	243
TaqI	TCGA	2 cut(s)	277, 309
TasI	AATT	1 cut(s)	113
TfiI	GAWTC	2 cut(s)	165, 206
Tru1I	TTAA	1 cut(s)	156
Tru9I	TTAA	1 cut(s)	156
TseI	GCWGC	1 cut(s)	185
TspDTI	ATGAA	1 cut(s)	198
TspGWI	ACGGA	1 cut(s)	280
XapI	RAATTY	1 cut(s)	113
XcmI	CCANNNNNNNNNTGG	1 cut(s)	43

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