Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr06

Orthogroup ID

OG0002992

Physical Location & Seq

Genomic Coordinates Forward (+)

16777376 .. 16792830

Gene Structure 15455 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD06G1069800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGAACATTGGACACCTAGATTTTATAATTCTTATTCCCTTCTTTTATCATCAGGGGCTCAACTTATCCAAGCCACTCTATGTTTACGACATGCTCGGCTGCCAAGTTGGTTCCATTAAGGAAAATGAAGTTAAAGTGCCTGATGCTTGGAACATCTCTAGATCAGTCATTAAAAAGTATCTAAAGTTCAACGATATTCTGAAGTGGTCTCAGACATGGAGGCACATATTACGCACGTATCCCATCAATGAAACACTAAATGATGAGGACAAGTCAAAACTGATGACAGCTTTATATTTTCATCCCCATAGAATGCATAAGATGGGATCTGGAGTCGGTTCTCACCCTAAACATGAGGGCGCACGCTGCTTTATGGTAGTACGAACAGATGGAACAGTTGAAGATTTTTCGTACCACAAGTGCGTGATGGGTGCTCTTGATACTGTAGCACCTCAGAGGGTAAAGAGCTACCAGTCAAAATGGTTTGACCATGGACCTGAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010495 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016458 GO:0019222 GO:0030422 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043331 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0055029 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:1901360 GO:1901698 GO:1901699 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DUF3223 RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb1_4 RNA_pol_Rpb1_5

Protein Analysis

168

Amino Acids

19.44

Weight (kDa)

8.91

Isoelectric Point (pI)

41.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF3223	PF11523	74 - 142	3.7e-23	Protein of unknown function (DUF3223)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002992)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G63020 AT1G63020 AT1G63020 AT1G63020 AT1G63020
fragaria_vesca	FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400 FvH4_5g01400
malus_domestica	MD04G1068800.v1.1 MD06G1069300.v1.1 MD06G1069400.v1.1 MD06G1069500.v1.1 MD06G1069800.v1.1
prunus_persica	Prupe.5G089300_v2.0.a1
pyrus_communis	pycom04g06250
rosa_chinensis	RchiOBHm_Chr7g0199481
rosa_laevigata	RLG00000003790
rosa_multiflora	Rmu_co8411067.1_g000001 Rmu_sc0003890.1_g000001
rosa_roxburghii	Rroxscaffold_3G00256700
rosa_rugosa	Rorug07G0054300 Rorug07G0054400 Rorug07G0054500 Rorug07G0054500
rosa_samantha	Rh7AG179300 Rh7BG182800 Rh7CG188100 Rh7DG182200
rosa_wichuraiana	Rw7G015760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	26
AclWI	GGATC	1 cut(s)	334
AcuI	CTGAAG	1 cut(s)	221
AfaI	GTAC	2 cut(s)	381, 413
AgsI	TTSAA	2 cut(s)	190, 401
AluBI	AGCT	2 cut(s)	290, 468
AluI	AGCT	2 cut(s)	290, 468
Alw21I	GWGCWC	1 cut(s)	436
Alw26I	GTCTC	1 cut(s)	213
AlwI	GGATC	1 cut(s)	334
ApeKI	GCWGC	2 cut(s)	99, 366
AspLEI	GCGC	1 cut(s)	362
AspS9I	GGNCC	1 cut(s)	494
AsuHPI	GGTGA	1 cut(s)	335
AvaII	GGWCC	1 cut(s)	494
BaeI	ACNNNNGTAYC	2 cut(s)	221, 254
BanII	GRGCYC	1 cut(s)	60
Bbv12I	GWGCWC	1 cut(s)	436
BbvI	GCAGC	2 cut(s)	86, 353
BccI	CCATC	4 cut(s)	251, 316, 383, 421
BciVI	GTATCC	1 cut(s)	249
BcoDI	GTCTC	1 cut(s)	213
BfaI	CTAG	2 cut(s)	17, 159
BfmI	CTRYAG	1 cut(s)	444
BfuI	GTATCC	1 cut(s)	249
BisI	GCNGC	2 cut(s)	100, 367
BlsI	GCNGC	2 cut(s)	101, 368
Bme18I	GGWCC	1 cut(s)	494
BmgT120I	GGNCC	1 cut(s)	494
BmiI	GGNNCC	1 cut(s)	112
BmsI	GCATC	1 cut(s)	133
BpmI	CTGGAG	1 cut(s)	351
BsaAI	YACGTR	1 cut(s)	237
BsaI	GGTCTC	1 cut(s)	213
BsaJI	CCNNGG	1 cut(s)	490
Bse1I	ACTGG	1 cut(s)	472
BseDI	CCNNGG	1 cut(s)	490
BseGI	GGATG	1 cut(s)	301
BseMII	CTCAG	2 cut(s)	224, 467
BseNI	ACTGG	1 cut(s)	472
BseXI	GCAGC	2 cut(s)	86, 353
BsiHKAI	GWGCWC	1 cut(s)	436
BsmAI	GTCTC	1 cut(s)	213
BsmI	GAATGC	1 cut(s)	318
Bso31I	GGTCTC	1 cut(s)	213
Bsp1286I	GDGCHC	2 cut(s)	60, 436
Bsp143I	GATC	2 cut(s)	161, 326
Bsp19I	CCATGG	1 cut(s)	490
BspCNI	CTCAG	2 cut(s)	223, 466
BspLI	GGNNCC	1 cut(s)	112
BspPI	GGATC	1 cut(s)	334
BspTNI	GGTCTC	1 cut(s)	213
BsrI	ACTGG	1 cut(s)	472
BssECI	CCNNGG	1 cut(s)	490
BssMI	GATC	2 cut(s)	161, 326
BssT1I	CCWWGG	1 cut(s)	490
Bst4CI	ACNGT	2 cut(s)	397, 445
BstBAI	YACGTR	1 cut(s)	237
BstC8I	GCNNGC	1 cut(s)	364
BstDEI	CTNAG	2 cut(s)	210, 453
BstDSI	CCRYGG	1 cut(s)	490
BstF5I	GGATG	1 cut(s)	301
BstHHI	GCGC	1 cut(s)	362
BstKTI	GATC	2 cut(s)	164, 329
BstMAI	GTCTC	1 cut(s)	213
BstMBI	GATC	2 cut(s)	161, 326
BstMWI	GCNNNNNNNGC	1 cut(s)	366
BstNSI	RCATGY	1 cut(s)	94
BstSFI	CTRYAG	1 cut(s)	444
BstV1I	GCAGC	2 cut(s)	86, 353
BstX2I	RGATCY	1 cut(s)	326
BstYI	RGATCY	1 cut(s)	326
BsuI	GTATCC	1 cut(s)	249
BtgI	CCRYGG	1 cut(s)	490
BtsCI	GGATG	1 cut(s)	301
Cac8I	GCNNGC	1 cut(s)	364
CfoI	GCGC	1 cut(s)	362
Cfr13I	GGNCC	1 cut(s)	494
Csp6I	GTAC	2 cut(s)	380, 412
CviAII	CATG	4 cut(s)	91, 216, 353, 491
CviJI	RGCY	5 cut(s)	58, 73, 99, 290, 468
CviKI_1	RGCY	5 cut(s)	58, 73, 99, 290, 468
CviQI	GTAC	2 cut(s)	380, 412
DdeI	CTNAG	2 cut(s)	210, 453
DpnI	GATC	2 cut(s)	163, 328
DpnII	GATC	2 cut(s)	161, 326
Eco130I	CCWWGG	1 cut(s)	490
Eco24I	GRGCYC	1 cut(s)	60
Eco31I	GGTCTC	1 cut(s)	213
Eco47I	GGWCC	1 cut(s)	494
Eco57I	CTGAAG	1 cut(s)	221
EcoT14I	CCWWGG	1 cut(s)	490
EcoT22I	ATGCAT	1 cut(s)	318
EcoT38I	GRGCYC	1 cut(s)	60
ErhI	CCWWGG	1 cut(s)	490
FaeI	CATG	4 cut(s)	94, 219, 356, 494
FatI	CATG	4 cut(s)	90, 215, 352, 490
Fnu4HI	GCNGC	2 cut(s)	100, 367
FokI	GGATG	1 cut(s)	288
FriOI	GRGCYC	1 cut(s)	60
Fsp4HI	GCNGC	2 cut(s)	100, 367
FspBI	CTAG	2 cut(s)	17, 159
GlaI	GCGC	1 cut(s)	361
GluI	GCNGC	2 cut(s)	100, 367
GsuI	CTGGAG	1 cut(s)	351
HhaI	GCGC	1 cut(s)	362
Hin1II	CATG	4 cut(s)	94, 219, 356, 494
Hin6I	GCGC	1 cut(s)	360
HinP1I	GCGC	1 cut(s)	360
HinfI	GANTC	1 cut(s)	333
HphI	GGTGA	1 cut(s)	335
Hpy166II	GTNNAC	1 cut(s)	85
Hpy188I	TCNGA	3 cut(s)	201, 213, 456
Hpy188III	TCNNGA	3 cut(s)	159, 330, 437
Hpy8I	GTNNAC	1 cut(s)	85
HpyAV	CCTTC	1 cut(s)	49
HpyCH4III	ACNGT	2 cut(s)	397, 445
HpyCH4IV	ACGT	1 cut(s)	236
HpyCH4V	TGCA	1 cut(s)	316
HpyF10VI	GCNNNNNNNGC	1 cut(s)	366
HpyF3I	CTNAG	2 cut(s)	210, 453
HpySE526I	ACGT	1 cut(s)	236
Hsp92II	CATG	4 cut(s)	94, 219, 356, 494
HspAI	GCGC	1 cut(s)	360
Kzo9I	GATC	2 cut(s)	161, 326
LpnPI	CCDG	4 cut(s)	38, 153, 315, 485
Lsp1109I	GCAGC	2 cut(s)	86, 353
LweI	GCATC	1 cut(s)	133
MaeI	CTAG	2 cut(s)	17, 159
MaeII	ACGT	1 cut(s)	236
MalI	GATC	2 cut(s)	163, 328
MboI	GATC	2 cut(s)	161, 326
MboII	GAAGA	1 cut(s)	413
MflI	RGATCY	1 cut(s)	326
MhlI	GDGCHC	2 cut(s)	60, 436
MluCI	AATT	1 cut(s)	27
MlyI	GAGTC	1 cut(s)	342
MnlI	CCTC	5 cut(s)	213, 259, 349, 450, 462
Mph1103I	ATGCAT	1 cut(s)	318
MseI	TTAA	3 cut(s)	117, 132, 171
Mva1269I	GAATGC	1 cut(s)	318
MwoI	GCNNNNNNNGC	1 cut(s)	366
NcoI	CCATGG	1 cut(s)	490
NdeII	GATC	2 cut(s)	161, 326
NlaIII	CATG	4 cut(s)	94, 219, 356, 494
NlaIV	GGNNCC	1 cut(s)	112
NmeAIII	GCCGAG	1 cut(s)	75
NsiI	ATGCAT	1 cut(s)	318
NspI	RCATGY	1 cut(s)	94
PctI	GAATGC	1 cut(s)	318
PkrI	GCNGC	2 cut(s)	101, 368
PleI	GAGTC	1 cut(s)	341
PpsI	GAGTC	1 cut(s)	341
Ppu21I	YACGTR	1 cut(s)	237
PsiI	TTATAA	1 cut(s)	26
PspN4I	GGNNCC	1 cut(s)	112
PspPI	GGNCC	1 cut(s)	494
PsrI	GAACNNNNNNTAC	2 cut(s)	170, 202
PsuI	RGATCY	1 cut(s)	326
RsaI	GTAC	2 cut(s)	381, 413
RsaNI	GTAC	2 cut(s)	380, 412
SaqAI	TTAA	3 cut(s)	117, 132, 171
SatI	GCNGC	2 cut(s)	100, 367
Sau3AI	GATC	2 cut(s)	161, 326
Sau96I	GGNCC	1 cut(s)	494
SchI	GAGTC	1 cut(s)	342
SduI	GDGCHC	2 cut(s)	60, 436
SetI	ASST	6 cut(s)	18, 239, 292, 454, 470, 499
SfaNI	GCATC	1 cut(s)	133
SfcI	CTRYAG	1 cut(s)	444
SinI	GGWCC	1 cut(s)	494
Sse9I	AATT	1 cut(s)	27
SspMI	CTAG	2 cut(s)	17, 159
StyI	CCWWGG	1 cut(s)	490
TaaI	ACNGT	2 cut(s)	397, 445
TaiI	ACGT	1 cut(s)	239
TasI	AATT	1 cut(s)	27
Tru1I	TTAA	3 cut(s)	117, 132, 171
Tru9I	TTAA	3 cut(s)	117, 132, 171
TseI	GCWGC	2 cut(s)	99, 366
TspDTI	ATGAA	4 cut(s)	17, 141, 264, 290
VpaK11BI	GGWCC	1 cut(s)	494
XbaI	TCTAGA	1 cut(s)	158
XceI	RCATGY	1 cut(s)	94
XspI	CTAG	2 cut(s)	17, 159
Zsp2I	ATGCAT	1 cut(s)	318

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