Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr04

Orthogroup ID

OG0005975

Physical Location & Seq

Genomic Coordinates Forward (+)

29806452 .. 29807691

Gene Structure 1240 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD04G1215000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 396 bp

ATGCAAGTAGAGAAGGCGACTAGAGAATCCGAGGCTGAGGCAATCAGAAAAATTCTGGGCCAAGATTCCAGTAGGAAGAAACGAGAAGACAAGATAAAGAAATGGCAAGAAGATATGGCACAGGAGAGGGCAGCAAATGCCTTTATACTTCCGCCAGATTCTGTCCGATGGGTGATGGGTCCATCAGGATCGGTTGTAACCTTCCCCAATGAAATGGGCTTGCCAGCCATATTCGACTCCAAGCCTTGCAGTTACCCTCTTCCCCGTGAAAAGTGTGCCGGACCATATTGTACAAATCCATACAGGTACCGGGATTCGCAGTCGAAGCTCCCTCTGTGCAGTCTCCAGTGTTACAAGGCAATACATGAAAAGATGGCTCCTCTATCTGCCCGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PAPA-1 zf-HIT

Protein Analysis

132

Amino Acids

14.88

Weight (kDa)

9.14

Isoelectric Point (pI)

56.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PAPA-1	PF04795	1 - 72	8.2e-15	PAPA-1-like conserved region
zf-HIT	PF04438	88 - 119	1.8e-07	HIT zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005975)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G56460 AT1G56460 AT1G56460
fragaria_vesca	FvH4_6g07480 FvH4_6g07480 FvH4_6g07480 FvH4_6g07480
malus_domestica	MD00G1208200.v1.1 MD04G1214800.v1.1 MD04G1215000.v1.1 MD12G1205400.v1.1
prunus_persica	Prupe.6G312500_v2.0.a1
pyrus_communis	pycom12g19330
rosa_chinensis	RchiOBHm_Chr3g0457151 RchiOBHm_Chr3g0457181
rosa_laevigata	RLG00000025244
rosa_multiflora	Rmu_sc0000488.1_g000012
rosa_roxburghii	Rroxscaffold_6G00422130
rosa_rugosa	Rorug03G0019200 Rorug03G0019300 Rorug03G0019300 Rorug03G0019400
rosa_samantha	Rh3AG079100 Rh3BG080800 Rh3CG080900 Rh3DG082800
rosa_wichuraiana	Rw3G006800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	306
AccB1I	GGYRCC	1 cut(s)	306
AciI	CCGC	1 cut(s)	152
AclWI	GGATC	1 cut(s)	196
AcsI	RAATTY	1 cut(s)	51
AfaI	GTAC	2 cut(s)	292, 308
AluBI	AGCT	1 cut(s)	328
AluI	AGCT	1 cut(s)	328
Alw26I	GTCTC	1 cut(s)	347
AlwI	GGATC	1 cut(s)	196
AlwNI	CAGNNNCTG	1 cut(s)	161
AoxI	GGCC	1 cut(s)	58
ApeKI	GCWGC	1 cut(s)	131
ApoI	RAATTY	1 cut(s)	51
Asp718I	GGTACC	1 cut(s)	306
AspS9I	GGNCC	3 cut(s)	58, 179, 281
AsuC2I	CCSGG	1 cut(s)	311
AsuHPI	GGTGA	1 cut(s)	184
AvaII	GGWCC	2 cut(s)	179, 281
BanI	GGYRCC	1 cut(s)	306
BbsI	GAAGAC	1 cut(s)	93
BbvCI	CCTCAGC	1 cut(s)	36
BbvI	GCAGC	1 cut(s)	143
BccI	CCATC	4 cut(s)	162, 169, 190, 367
BcnI	CCSGG	1 cut(s)	311
BcoDI	GTCTC	1 cut(s)	347
BfaI	CTAG	1 cut(s)	21
BisI	GCNGC	1 cut(s)	132
BlsI	GCNGC	1 cut(s)	133
Bme1390I	CCNGG	1 cut(s)	311
Bme18I	GGWCC	2 cut(s)	179, 281
BmgT120I	GGNCC	3 cut(s)	58, 179, 281
BmiI	GGNNCC	3 cut(s)	180, 308, 378
BmrFI	CCNGG	1 cut(s)	311
BpiI	GAAGAC	1 cut(s)	93
BpmI	CTGGAG	1 cut(s)	329
Bpu10I	CCTNAGC	1 cut(s)	36
BpuMI	CCSGG	1 cut(s)	311
BsaJI	CCNNGG	1 cut(s)	30
Bse1I	ACTGG	2 cut(s)	69, 346
BseDI	CCNNGG	1 cut(s)	30
BseMII	CTCAG	1 cut(s)	27
BseNI	ACTGG	2 cut(s)	69, 346
BseRI	GAGGAG	1 cut(s)	369
BseXI	GCAGC	1 cut(s)	143
BsgI	GTGCAG	1 cut(s)	358
BshFI	GGCC	1 cut(s)	60
BshNI	GGYRCC	1 cut(s)	306
BsiSI	CCGG	2 cut(s)	279, 310
BsmAI	GTCTC	1 cut(s)	347
BsnI	GGCC	1 cut(s)	60
Bsp1407I	TGTACA	1 cut(s)	290
Bsp143I	GATC	1 cut(s)	188
BspACI	CCGC	1 cut(s)	152
BspANI	GGCC	1 cut(s)	60
BspCNI	CTCAG	1 cut(s)	28
BspLI	GGNNCC	3 cut(s)	180, 308, 378
BspPI	GGATC	1 cut(s)	196
BspT107I	GGYRCC	1 cut(s)	306
BsrGI	TGTACA	1 cut(s)	290
BsrI	ACTGG	2 cut(s)	69, 346
BssECI	CCNNGG	1 cut(s)	30
BssMI	GATC	1 cut(s)	188
Bst6I	CTCTTC	1 cut(s)	264
BstAPI	GCANNNNNTGC	1 cut(s)	137
BstAUI	TGTACA	1 cut(s)	290
BstC8I	GCNNGC	2 cut(s)	221, 225
BstDEI	CTNAG	1 cut(s)	36
BstKTI	GATC	1 cut(s)	191
BstMAI	GTCTC	1 cut(s)	347
BstMBI	GATC	1 cut(s)	188
BstMWI	GCNNNNNNNGC	2 cut(s)	137, 325
BstSCI	CCNGG	1 cut(s)	309
BstV1I	GCAGC	1 cut(s)	143
BstV2I	GAAGAC	1 cut(s)	93
BstXI	CCANNNNNNTGG	1 cut(s)	214
BsuRI	GGCC	1 cut(s)	60
BtsIMutI	CAGTG	1 cut(s)	353
Cac8I	GCNNGC	2 cut(s)	221, 225
CaiI	CAGNNNCTG	1 cut(s)	161
Cfr13I	GGNCC	3 cut(s)	58, 179, 281
Csp6I	GTAC	2 cut(s)	291, 307
CviAII	CATG	1 cut(s)	365
CviJI	RGCY	7 cut(s)	35, 60, 219, 227, 244, 328, 377
CviKI_1	RGCY	7 cut(s)	35, 60, 219, 227, 244, 328, 377
CviQI	GTAC	2 cut(s)	291, 307
DdeI	CTNAG	1 cut(s)	36
DpnI	GATC	1 cut(s)	190
DpnII	GATC	1 cut(s)	188
Eam1104I	CTCTTC	1 cut(s)	264
EarI	CTCTTC	1 cut(s)	264
EciI	GGCGGA	1 cut(s)	141
Eco47I	GGWCC	2 cut(s)	179, 281
FaeI	CATG	1 cut(s)	368
FaiI	YATR	6 cut(s)	116, 146, 230, 286, 301, 366
FatI	CATG	1 cut(s)	364
Fnu4HI	GCNGC	1 cut(s)	132
Fsp4HI	GCNGC	1 cut(s)	132
FspBI	CTAG	1 cut(s)	21
GluI	GCNGC	1 cut(s)	132
GsuI	CTGGAG	1 cut(s)	329
HaeIII	GGCC	1 cut(s)	60
HapII	CCGG	2 cut(s)	279, 310
Hin1II	CATG	1 cut(s)	368
HinfI	GANTC	5 cut(s)	26, 65, 158, 236, 314
HpaII	CCGG	2 cut(s)	279, 310
HphI	GGTGA	1 cut(s)	184
Hpy188I	TCNGA	3 cut(s)	31, 47, 167
Hpy188III	TCNNGA	1 cut(s)	186
HpyAV	CCTTC	2 cut(s)	7, 211
HpyCH4V	TGCA	3 cut(s)	4, 249, 339
HpyF10VI	GCNNNNNNNGC	2 cut(s)	137, 325
HpyF3I	CTNAG	1 cut(s)	36
Hsp92II	CATG	1 cut(s)	368
KpnI	GGTACC	1 cut(s)	310
Kzo9I	GATC	1 cut(s)	188
LmnI	GCTCC	2 cut(s)	333, 382
Lsp1109I	GCAGC	1 cut(s)	143
MaeI	CTAG	1 cut(s)	21
MaeIII	GTNAC	3 cut(s)	196, 251, 350
MalI	GATC	1 cut(s)	190
MboI	GATC	1 cut(s)	188
MboII	GAAGA	4 cut(s)	88, 98, 122, 251
MluCI	AATT	1 cut(s)	51
MlyI	GAGTC	1 cut(s)	230
MnlI	CCTC	6 cut(s)	25, 31, 120, 267, 342, 390
MspI	CCGG	2 cut(s)	279, 310
MspR9I	CCNGG	1 cut(s)	311
MwoI	GCNNNNNNNGC	2 cut(s)	137, 325
NciI	CCSGG	1 cut(s)	311
NdeII	GATC	1 cut(s)	188
NlaIII	CATG	1 cut(s)	368
NlaIV	GGNNCC	3 cut(s)	180, 308, 378
PfeI	GAWTC	4 cut(s)	26, 65, 158, 314
PkrI	GCNGC	1 cut(s)	133
PleI	GAGTC	1 cut(s)	230
PpsI	GAGTC	1 cut(s)	230
PspN4I	GGNNCC	3 cut(s)	180, 308, 378
PspPI	GGNCC	3 cut(s)	58, 179, 281
PstNI	CAGNNNCTG	1 cut(s)	161
RsaI	GTAC	2 cut(s)	292, 308
RsaNI	GTAC	2 cut(s)	291, 307
SatI	GCNGC	1 cut(s)	132
Sau3AI	GATC	1 cut(s)	188
Sau96I	GGNCC	3 cut(s)	58, 179, 281
SchI	GAGTC	1 cut(s)	230
ScrFI	CCNGG	1 cut(s)	311
SetI	ASST	3 cut(s)	203, 308, 330
SinI	GGWCC	2 cut(s)	179, 281
Sse9I	AATT	1 cut(s)	51
SsiI	CCGC	1 cut(s)	152
SspMI	CTAG	1 cut(s)	21
StyD4I	CCNGG	1 cut(s)	309
TaqI	TCGA	2 cut(s)	234, 323
TasI	AATT	1 cut(s)	51
TatI	WGTACW	1 cut(s)	290
TfiI	GAWTC	4 cut(s)	26, 65, 158, 314
TscAI	CASTG	1 cut(s)	353
TseI	GCWGC	1 cut(s)	131
TspDTI	ATGAA	2 cut(s)	225, 381
TspRI	CASTG	1 cut(s)	353
VpaK11BI	GGWCC	2 cut(s)	179, 281
XapI	RAATTY	1 cut(s)	51
XspI	CTAG	1 cut(s)	21

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