Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr10

Orthogroup ID

OG0009411

Physical Location & Seq

Genomic Coordinates Forward (+)

12229532 .. 12232318

Gene Structure 2787 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD10G1083600.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 351 bp

ATGAATGCTCCAGACCGATATGAACGATTTGTCGTCCCTGAAGGGACAAAAAAGGTGTCATACGAGAGGGACACGAAGATCATCAATGCAGCATCGTTTACAATTGAGAGAGAGGACCACACCATTGGCAACATCCTCCGCATGCAGCTACACAGGGACGAGAATGTTTTGTTTGCCGGCTACAAGCTTCCTCACCCCCTTCAGTACAAGATTATTGTCAGGATTCACACAAGCAGCCAGTCTTCACCAATGCAAGCATACAACCAGGCTATTAATGATCTTGACAAGGAACTTGACCATTTGAAGAGTGGTTTTGAGGCTGAAGTTGCAAAGCATTCAGTGGAGTACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0016591 GO:0030880 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0055029 GO:0061695 GO:0070013 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_L_2

Protein Analysis

117

Amino Acids

13.45

Weight (kDa)

6.29

Isoelectric Point (pI)

28.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_L_2	PF13656	31 - 103	2.1e-28	RNA polymerase Rpb3/Rpb11 dimerisation domain
RNA_pol_L	PF01193	33 - 97	6.8e-07	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: OG0009411)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G52090 AT3G52090
fragaria_vesca	FvH4_2g07830
malus_domestica	MD05G1071600.v1.1 MD10G1083600.v1.1
prunus_persica	Prupe.8G106600_v2.0.a1 Prupe.8G106600_v2.0.a1
pyrus_communis	pycom05g06170 pycom10g06570
rosa_chinensis	RchiOBHm_Chr6g0262241
rosa_multiflora	Rmu_sc0002510.1_g000027 Rmu_sc0010083.1_g000004
rosa_roxburghii	Rroxscaffold_7G00207930
rosa_rugosa	Rorug05G0595600 Rorug05G0595700 Rorug05G0595700
rosa_samantha	Rh2AG296400 Rh2DG320300 Rh6AG115800 Rh6BG110100 Rh6DG098100
rosa_wichuraiana	Rw6G010080

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	139
AcuI	CTGAAG	3 cut(s)	60, 185, 342
AfaI	GTAC	2 cut(s)	206, 347
AgsI	TTSAA	1 cut(s)	304
AjnI	CCWGG	1 cut(s)	264
AluBI	AGCT	2 cut(s)	148, 187
AluI	AGCT	2 cut(s)	148, 187
ApeKI	GCWGC	3 cut(s)	89, 145, 234
ArsI	GACNNNNNNTTYG	2 cut(s)	41, 73
AseI	ATTAAT	1 cut(s)	273
AspS9I	GGNCC	1 cut(s)	115
AsuHPI	GGTGA	2 cut(s)	185, 237
AvaII	GGWCC	1 cut(s)	115
BbsI	GAAGAC	1 cut(s)	234
BbvI	GCAGC	3 cut(s)	101, 157, 246
BciT130I	CCWGG	1 cut(s)	266
BfaI	CTAG	1 cut(s)	349
BisI	GCNGC	3 cut(s)	90, 146, 235
BlsI	GCNGC	3 cut(s)	91, 147, 236
BmcAI	AGTACT	1 cut(s)	347
Bme1390I	CCNGG	1 cut(s)	266
Bme18I	GGWCC	1 cut(s)	115
BmgT120I	GGNCC	1 cut(s)	115
BmrFI	CCNGG	1 cut(s)	266
BmsI	GCATC	1 cut(s)	101
BpiI	GAAGAC	1 cut(s)	234
Bse118I	RCCGGY	1 cut(s)	176
Bse1I	ACTGG	1 cut(s)	238
BseBI	CCWGG	1 cut(s)	266
BseGI	GGATG	1 cut(s)	132
BseNI	ACTGG	1 cut(s)	238
BseXI	GCAGC	3 cut(s)	101, 157, 246
BsiSI	CCGG	1 cut(s)	177
BslFI	GGGAC	4 cut(s)	20, 58, 83, 170
BsmFI	GGGAC	4 cut(s)	20, 58, 83, 170
BsmI	GAATGC	2 cut(s)	10, 334
Bsp143I	GATC	2 cut(s)	78, 277
BspACI	CCGC	1 cut(s)	139
BsrFI	RCCGGY	1 cut(s)	176
BsrI	ACTGG	1 cut(s)	238
BssAI	RCCGGY	1 cut(s)	176
BssMI	GATC	2 cut(s)	78, 277
Bst2UI	CCWGG	1 cut(s)	266
Bst6I	CTCTTC	1 cut(s)	299
BstC8I	GCNNGC	3 cut(s)	143, 178, 255
BstF5I	GGATG	1 cut(s)	132
BstKTI	GATC	2 cut(s)	81, 280
BstMBI	GATC	2 cut(s)	78, 277
BstMWI	GCNNNNNNNGC	1 cut(s)	326
BstNI	CCWGG	1 cut(s)	266
BstNSI	RCATGY	1 cut(s)	145
BstSCI	CCNGG	1 cut(s)	264
BstV1I	GCAGC	3 cut(s)	101, 157, 246
BstV2I	GAAGAC	1 cut(s)	234
BstXI	CCANNNNNNTGG	1 cut(s)	125
BtsCI	GGATG	1 cut(s)	132
BtsIMutI	CAGTG	1 cut(s)	345
Cac8I	GCNNGC	3 cut(s)	143, 178, 255
Cfr10I	RCCGGY	1 cut(s)	176
Cfr13I	GGNCC	1 cut(s)	115
Csp6I	GTAC	2 cut(s)	205, 346
CviAII	CATG	1 cut(s)	142
CviJI	RGCY	6 cut(s)	148, 180, 187, 237, 269, 320
CviKI_1	RGCY	6 cut(s)	148, 180, 187, 237, 269, 320
CviQI	GTAC	2 cut(s)	205, 346
DpnI	GATC	2 cut(s)	80, 279
DpnII	GATC	2 cut(s)	78, 277
Eam1104I	CTCTTC	1 cut(s)	299
EarI	CTCTTC	1 cut(s)	299
Eco47I	GGWCC	1 cut(s)	115
Eco57I	CTGAAG	3 cut(s)	60, 185, 342
EcoRII	CCWGG	1 cut(s)	264
FaeI	CATG	1 cut(s)	145
FaiI	YATR	4 cut(s)	21, 61, 143, 259
FaqI	GGGAC	4 cut(s)	20, 58, 83, 170
FatI	CATG	1 cut(s)	141
Fnu4HI	GCNGC	3 cut(s)	90, 146, 235
FokI	GGATG	1 cut(s)	119
Fsp4HI	GCNGC	3 cut(s)	90, 146, 235
FspBI	CTAG	1 cut(s)	349
GluI	GCNGC	3 cut(s)	90, 146, 235
HapII	CCGG	1 cut(s)	177
Hin1II	CATG	1 cut(s)	145
HindIII	AAGCTT	1 cut(s)	185
HinfI	GANTC	1 cut(s)	223
HpaII	CCGG	1 cut(s)	177
HphI	GGTGA	2 cut(s)	185, 237
Hpy166II	GTNNAC	1 cut(s)	99
Hpy188III	TCNNGA	3 cut(s)	11, 220, 281
Hpy8I	GTNNAC	1 cut(s)	99
HpyAV	CCTTC	2 cut(s)	35, 209
HpyCH4V	TGCA	4 cut(s)	89, 145, 253, 329
HpyF10VI	GCNNNNNNNGC	1 cut(s)	326
Hsp92II	CATG	1 cut(s)	145
KroI	GCCGGC	1 cut(s)	176
KroNI	GCCGGC	1 cut(s)	178
Kzo9I	GATC	2 cut(s)	78, 277
LmnI	GCTCC	1 cut(s)	13
LpnPI	CCDG	8 cut(s)	24, 51, 139, 190, 205, 251, 251, 278
Lsp1109I	GCAGC	3 cut(s)	101, 157, 246
LweI	GCATC	1 cut(s)	101
MaeI	CTAG	1 cut(s)	349
MalI	GATC	2 cut(s)	80, 279
MboI	GATC	2 cut(s)	78, 277
MboII	GAAGA	3 cut(s)	88, 234, 316
MfeI	CAATTG	1 cut(s)	102
MluCI	AATT	1 cut(s)	102
MnlI	CCTC	5 cut(s)	60, 106, 146, 201, 310
MroNI	GCCGGC	1 cut(s)	176
MseI	TTAA	1 cut(s)	273
MspI	CCGG	1 cut(s)	177
MspR9I	CCNGG	1 cut(s)	266
MunI	CAATTG	1 cut(s)	102
Mva1269I	GAATGC	2 cut(s)	10, 334
MvaI	CCWGG	1 cut(s)	266
MwoI	GCNNNNNNNGC	1 cut(s)	326
NaeI	GCCGGC	1 cut(s)	178
NdeII	GATC	2 cut(s)	78, 277
NgoMIV	GCCGGC	1 cut(s)	176
NlaIII	CATG	1 cut(s)	145
NspI	RCATGY	1 cut(s)	145
PaeI	GCATGC	1 cut(s)	145
PctI	GAATGC	2 cut(s)	10, 334
PdiI	GCCGGC	1 cut(s)	178
PfeI	GAWTC	1 cut(s)	223
PkrI	GCNGC	3 cut(s)	91, 147, 236
PshBI	ATTAAT	1 cut(s)	273
Psp6I	CCWGG	1 cut(s)	264
PspGI	CCWGG	1 cut(s)	264
PspPI	GGNCC	1 cut(s)	115
RsaI	GTAC	2 cut(s)	206, 347
RsaNI	GTAC	2 cut(s)	205, 346
SaqAI	TTAA	1 cut(s)	273
SatI	GCNGC	3 cut(s)	90, 146, 235
Sau3AI	GATC	2 cut(s)	78, 277
Sau96I	GGNCC	1 cut(s)	115
ScaI	AGTACT	1 cut(s)	347
ScrFI	CCNGG	1 cut(s)	266
SetI	ASST	3 cut(s)	57, 150, 189
SfaNI	GCATC	1 cut(s)	101
SinI	GGWCC	1 cut(s)	115
SphI	GCATGC	1 cut(s)	145
Sse9I	AATT	1 cut(s)	102
SsiI	CCGC	1 cut(s)	139
SspMI	CTAG	1 cut(s)	349
StyD4I	CCNGG	1 cut(s)	264
TaqII	GACCGA	1 cut(s)	30
TasI	AATT	1 cut(s)	102
TatI	WGTACW	2 cut(s)	204, 345
TfiI	GAWTC	1 cut(s)	223
Tru1I	TTAA	1 cut(s)	273
Tru9I	TTAA	1 cut(s)	273
TscAI	CASTG	1 cut(s)	345
TseI	GCWGC	3 cut(s)	89, 145, 234
TspDTI	ATGAA	2 cut(s)	17, 36
TspRI	CASTG	1 cut(s)	345
VpaK11BI	GGWCC	1 cut(s)	115
VspI	ATTAAT	1 cut(s)	273
XceI	RCATGY	1 cut(s)	145
XcmI	CCANNNNNNNNNTGG	1 cut(s)	305
XspI	CTAG	1 cut(s)	349
ZrmI	AGTACT	1 cut(s)	347

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