Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr13

Orthogroup ID

OG0012090

Physical Location & Seq

Genomic Coordinates Reverse (-)

12177237 .. 12179193

Gene Structure 1957 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD13G1156200.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 345 bp

ATGAGTACCATGAAATTTTGCCGCGAATGTAACAACATTCTGTACCCGAAGGAGGACAAGGAGCAGAAGAGCCTCCTCTACGCCTGCCGCAACTGCGATCACCAGGAGATTGCTGAGACCAACTGTGTCTACAGAAACGAGATACACCACGCTGTTGGTGAGCGCACTCAGATATTGCAGGATGTAGCTGCAGATCCTACTCTTCCAAGAACTAAAGCCGTGCGCTGTGCTGAGTGCAAGCATGGAGAAGCTGTTTTCTTTCAGGCAACTGCTAGAGGAGAGGAGGGTATGACATTGTTCTTCGTCTGCTGCAACCCCAGCTGCGGCCATAGGTGGAGAGACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001192 GO:0001193 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0006139 GO:0006259 GO:0006281 GO:0006283 GO:0006289 GO:0006351 GO:0006352 GO:0006354 GO:0006366 GO:0006367 GO:0006368 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0050896 GO:0051716 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 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

RNA_POL_M_15KD TFIIS_C

Protein Analysis

115

Amino Acids

13.12

Weight (kDa)

6.5

Isoelectric Point (pI)

55.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Zn_ribbon_RPB9	PF02150	4 - 36	1.6e-11	RNA polymerases M/15 Kd subunit
Zn_ribbon_TFIIS	PF01096	75 - 113	1.9e-10	Transcription factor S-II (TFIIS)

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: OG0012090)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G16980 AT4G16265 AT4G16265
fragaria_vesca	FvH4_4g19480
malus_domestica	MD13G1156200.v1.1 MD16G1157100.v1.1
prunus_persica	Prupe.1G122000_v2.0.a1
pyrus_communis	pycom13g13360 pycom16g13210
rosa_chinensis	RchiOBHm_Chr4g0424591
rosa_laevigata	RLG00000007453
rosa_multiflora	Rmu_sc0002603.1_g000022 Rmu_sc0003942.1_g000007
rosa_roxburghii	Rroxscaffold_5G00366510
rosa_rugosa	Rorug04G0198000 Rorug04G0198000
rosa_samantha	Rh4AG254800 Rh4BG260300
rosa_wichuraiana	Rw4G022030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	129
AccII	CGCG	1 cut(s)	24
AciI	CCGC	3 cut(s)	22, 88, 324
AclWI	GGATC	1 cut(s)	188
AcoI	YGGCCR	1 cut(s)	325
AcsI	RAATTY	1 cut(s)	14
AfaI	GTAC	2 cut(s)	7, 44
AfiI	CCNNNNNNNGG	2 cut(s)	52, 323
AjnI	CCWGG	1 cut(s)	102
AluBI	AGCT	3 cut(s)	188, 251, 321
AluI	AGCT	3 cut(s)	188, 251, 321
Alw26I	GTCTC	2 cut(s)	110, 333
AlwI	GGATC	1 cut(s)	188
AoxI	GGCC	1 cut(s)	325
ApeKI	GCWGC	3 cut(s)	188, 309, 321
ApoI	RAATTY	1 cut(s)	14
AspLEI	GCGC	2 cut(s)	165, 225
AsuHPI	GGTGA	2 cut(s)	92, 170
BbvI	GCAGC	3 cut(s)	175, 296, 308
BceAI	ACGGC	1 cut(s)	203
BciT130I	CCWGG	1 cut(s)	104
BcoDI	GTCTC	2 cut(s)	110, 333
BfaI	CTAG	1 cut(s)	273
BfmI	CTRYAG	2 cut(s)	130, 189
BisI	GCNGC	6 cut(s)	22, 88, 189, 310, 322, 325
BlsI	GCNGC	6 cut(s)	23, 89, 190, 311, 323, 326
Bme1390I	CCNGG	1 cut(s)	104
BmrFI	CCNGG	1 cut(s)	104
BsaI	GGTCTC	1 cut(s)	110
BsaXI	ACNNNNNCTCC	2 cut(s)	237, 267
Bsc4I	CCNNNNNNNGG	2 cut(s)	52, 323
BseBI	CCWGG	1 cut(s)	104
BseGI	GGATG	1 cut(s)	187
BseLI	CCNNNNNNNGG	2 cut(s)	52, 323
BseMII	CTCAG	3 cut(s)	105, 182, 222
BseRI	GAGGAG	3 cut(s)	65, 291, 296
BseXI	GCAGC	3 cut(s)	175, 296, 308
BseYI	CCCAGC	1 cut(s)	317
Bsh1236I	CGCG	1 cut(s)	24
BshFI	GGCC	1 cut(s)	327
BslI	CCNNNNNNNGG	2 cut(s)	52, 323
BsmAI	GTCTC	2 cut(s)	110, 333
BsnI	GGCC	1 cut(s)	327
Bso31I	GGTCTC	1 cut(s)	110
Bsp143I	GATC	2 cut(s)	97, 193
BspACI	CCGC	3 cut(s)	22, 88, 324
BspANI	GGCC	1 cut(s)	327
BspCNI	CTCAG	3 cut(s)	106, 181, 223
BspFNI	CGCG	1 cut(s)	24
BspMAI	CTGCAG	1 cut(s)	193
BspPI	GGATC	1 cut(s)	188
BspQI	GCTCTTC	1 cut(s)	62
BspTNI	GGTCTC	1 cut(s)	110
BssMI	GATC	2 cut(s)	97, 193
Bst2UI	CCWGG	1 cut(s)	104
Bst4CI	ACNGT	1 cut(s)	125
Bst6I	CTCTTC	2 cut(s)	62, 207
BstC8I	GCNNGC	2 cut(s)	85, 239
BstDEI	CTNAG	3 cut(s)	114, 168, 231
BstF5I	GGATG	1 cut(s)	187
BstFNI	CGCG	1 cut(s)	24
BstHHI	GCGC	2 cut(s)	165, 225
BstKTI	GATC	2 cut(s)	100, 196
BstMAI	GTCTC	2 cut(s)	110, 333
BstMBI	GATC	2 cut(s)	97, 193
BstMWI	GCNNNNNNNGC	2 cut(s)	93, 318
BstNI	CCWGG	1 cut(s)	104
BstSCI	CCNGG	1 cut(s)	102
BstSFI	CTRYAG	2 cut(s)	130, 189
BstUI	CGCG	1 cut(s)	24
BstV1I	GCAGC	3 cut(s)	175, 296, 308
BstX2I	RGATCY	1 cut(s)	193
BstXI	CCANNNNNNTGG	1 cut(s)	155
BstYI	RGATCY	1 cut(s)	193
BsuRI	GGCC	1 cut(s)	327
BtsCI	GGATG	1 cut(s)	187
Cac8I	GCNNGC	2 cut(s)	85, 239
CfoI	GCGC	2 cut(s)	165, 225
Csp6I	GTAC	2 cut(s)	6, 43
CviAII	CATG	2 cut(s)	10, 242
CviJI	RGCY	6 cut(s)	72, 188, 218, 251, 321, 327
CviKI_1	RGCY	6 cut(s)	72, 188, 218, 251, 321, 327
CviQI	GTAC	2 cut(s)	6, 43
DdeI	CTNAG	3 cut(s)	114, 168, 231
DpnI	GATC	2 cut(s)	99, 195
DpnII	GATC	2 cut(s)	97, 193
EaeI	YGGCCR	1 cut(s)	325
Eam1104I	CTCTTC	2 cut(s)	62, 207
EarI	CTCTTC	2 cut(s)	62, 207
Eco31I	GGTCTC	1 cut(s)	110
EcoRII	CCWGG	1 cut(s)	102
FaeI	CATG	2 cut(s)	13, 245
FaiI	YATR	4 cut(s)	11, 243, 290, 330
FatI	CATG	2 cut(s)	9, 241
FblI	GTMKAC	1 cut(s)	129
Fnu4HI	GCNGC	6 cut(s)	22, 88, 189, 310, 322, 325
FokI	GGATG	1 cut(s)	194
Fsp4HI	GCNGC	6 cut(s)	22, 88, 189, 310, 322, 325
FspBI	CTAG	1 cut(s)	273
GlaI	GCGC	2 cut(s)	164, 224
GluI	GCNGC	6 cut(s)	22, 88, 189, 310, 322, 325
GsaI	CCCAGC	1 cut(s)	321
HaeIII	GGCC	1 cut(s)	327
HhaI	GCGC	2 cut(s)	165, 225
Hin1II	CATG	2 cut(s)	13, 245
Hin6I	GCGC	2 cut(s)	163, 223
HinP1I	GCGC	2 cut(s)	163, 223
HphI	GGTGA	2 cut(s)	92, 170
Hpy166II	GTNNAC	1 cut(s)	130
Hpy188I	TCNGA	1 cut(s)	171
Hpy8I	GTNNAC	1 cut(s)	130
HpyAV	CCTTC	1 cut(s)	43
HpyCH4III	ACNGT	1 cut(s)	125
HpyCH4V	TGCA	4 cut(s)	178, 191, 237, 312
HpyF10VI	GCNNNNNNNGC	2 cut(s)	93, 318
HpyF3I	CTNAG	3 cut(s)	114, 168, 231
Hsp92II	CATG	2 cut(s)	13, 245
HspAI	GCGC	2 cut(s)	163, 223
Kzo9I	GATC	2 cut(s)	97, 193
LguI	GCTCTTC	1 cut(s)	62
LmnI	GCTCC	1 cut(s)	61
LpnPI	CCDG	6 cut(s)	89, 97, 116, 164, 248, 331
Lsp1109I	GCAGC	3 cut(s)	175, 296, 308
MaeI	CTAG	1 cut(s)	273
MaeIII	GTNAC	1 cut(s)	29
MalI	GATC	2 cut(s)	99, 195
MboI	GATC	2 cut(s)	97, 193
MboII	GAAGA	3 cut(s)	79, 194, 292
MflI	RGATCY	1 cut(s)	193
MluCI	AATT	1 cut(s)	14
MnlI	CCTC	6 cut(s)	46, 83, 86, 269, 274, 277
MspA1I	CMGCKG	1 cut(s)	321
MspR9I	CCNGG	1 cut(s)	104
MvaI	CCWGG	1 cut(s)	104
MvnI	CGCG	1 cut(s)	24
MwoI	GCNNNNNNNGC	2 cut(s)	93, 318
NdeII	GATC	2 cut(s)	97, 193
NlaIII	CATG	2 cut(s)	13, 245
PciSI	GCTCTTC	1 cut(s)	62
PkrI	GCNGC	6 cut(s)	23, 89, 190, 311, 323, 326
Psp6I	CCWGG	1 cut(s)	102
PspFI	CCCAGC	1 cut(s)	317
PspGI	CCWGG	1 cut(s)	102
PstI	CTGCAG	1 cut(s)	193
PsuI	RGATCY	1 cut(s)	193
PvuII	CAGCTG	1 cut(s)	321
RsaI	GTAC	2 cut(s)	7, 44
RsaNI	GTAC	2 cut(s)	6, 43
SapI	GCTCTTC	1 cut(s)	62
SatI	GCNGC	6 cut(s)	22, 88, 189, 310, 322, 325
Sau3AI	GATC	2 cut(s)	97, 193
ScrFI	CCNGG	1 cut(s)	104
SetI	ASST	4 cut(s)	190, 253, 323, 335
SfcI	CTRYAG	2 cut(s)	130, 189
Sse9I	AATT	1 cut(s)	14
SsiI	CCGC	3 cut(s)	22, 88, 324
SspMI	CTAG	1 cut(s)	273
StyD4I	CCNGG	1 cut(s)	102
TaaI	ACNGT	1 cut(s)	125
TasI	AATT	1 cut(s)	14
TauI	GCSGC	3 cut(s)	24, 90, 327
TseI	GCWGC	3 cut(s)	188, 309, 321
TspDTI	ATGAA	1 cut(s)	26
XapI	RAATTY	1 cut(s)	14
XmiI	GTMKAC	1 cut(s)	129
XspI	CTAG	1 cut(s)	273

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