Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr12

Orthogroup ID

OG0009169

Physical Location & Seq

Genomic Coordinates Forward (+)

28280940 .. 28283196

Gene Structure 2257 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD12G1202300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGCCGATGGGGAAGTATTTTTGCGATTACTGCGAGAAGGAATTCCAGGACACACCACCTTCGAGAAGACGCCATCTTCAAAGCGGCCAACACCTTCGAGCCAGAGCTCAATGGTACGCCTCCTTCAAAGATCCCAACCATCCTTACCCGACACAAGGGGTCTGCAACCGCTTTGTCAATACGGGATCTTGCCCATATGGTGATTCTTGTAAATACCTTCATCCCAAGAACAATCAGCAGGATACAGTTTTGATTGATAATAATCAGTCTTCGACTTTTCAAGAGAATCAGTCGGTTGGAGGCAGCTCTTTGCCAGATGTGGTTGTCAGAGATCATACGGGAACGTCATGGAGCAATCTACCTCCATCCCTAATGCCTCCTCCAGAGGGTGGACATCCGCGGCTTCCTTTCGTAGACTGGGGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005689 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-CCCH zf-U1

Protein Analysis

142

Amino Acids

15.97

Weight (kDa)

6.99

Isoelectric Point (pI)

62.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-U1	PF06220	3 - 39	2.9e-08	U1 zinc finger
zf-CCCH	PF00642	54 - 76	1.2e-08	Zinc finger C-x8-C-x5-C-x3-H type (and similar)
zf_CCCH_4	PF18345	55 - 74	8.2e-07	Zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0009169)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G26749 AT5G26749
fragaria_vesca	FvH4_6g08160 FvH4_6g08160 FvH4_6g08160 FvH4_6g08160
malus_domestica	MD12G1202300.v1.1
prunus_persica	Prupe.6G307100_v2.0.a1
pyrus_communis	pycom12g18890
rosa_chinensis	RchiOBHm_Chr3g0458031
rosa_laevigata	RLG00000025178
rosa_multiflora	Rmu_sc0000384.1_g000012
rosa_roxburghii	Rroxscaffold_6G00421340
rosa_rugosa	Rorug03G0024400 Rorug03G0024400 Rorug03G0024500
rosa_samantha	Rh3AG084900 Rh3BG087700 Rh3CG088200 Rh3DG088600
rosa_wichuraiana	Rw0G012410 Rw3G007230

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	389
AccI	GTMKAC	1 cut(s)	414
AccII	CGCG	1 cut(s)	400
AciI	CCGC	4 cut(s)	84, 169, 398, 400
AclWI	GGATC	2 cut(s)	125, 193
AcoI	YGGCCR	1 cut(s)	85
AcsI	RAATTY	1 cut(s)	41
AcyI	GRCGYC	1 cut(s)	70
AfaI	GTAC	1 cut(s)	116
AfiI	CCNNNNNNNGG	3 cut(s)	155, 386, 389
AgsI	TTSAA	3 cut(s)	80, 127, 281
AjnI	CCWGG	1 cut(s)	45
AluBI	AGCT	2 cut(s)	107, 306
AluI	AGCT	2 cut(s)	107, 306
Alw21I	GWGCWC	1 cut(s)	109
AlwI	GGATC	2 cut(s)	125, 193
AoxI	GGCC	1 cut(s)	85
ApeKI	GCWGC	1 cut(s)	303
ApoI	RAATTY	1 cut(s)	41
Asp700I	GAANNNNTTC	1 cut(s)	41
AsuHPI	GGTGA	1 cut(s)	212
BanII	GRGCYC	1 cut(s)	109
BarI	GAAGNNNNNNTAC	2 cut(s)	107, 139
BbsI	GAAGAC	2 cut(s)	73, 261
Bbv12I	GWGCWC	1 cut(s)	109
BbvI	GCAGC	1 cut(s)	315
BccI	CCATC	3 cut(s)	81, 147, 373
BciT130I	CCWGG	1 cut(s)	47
BciVI	GTATCC	1 cut(s)	235
BfuI	GTATCC	1 cut(s)	235
BisI	GCNGC	3 cut(s)	85, 304, 401
BlsI	GCNGC	3 cut(s)	86, 305, 402
Bme1390I	CCNGG	1 cut(s)	47
BmrFI	CCNGG	1 cut(s)	47
BpiI	GAAGAC	2 cut(s)	73, 261
BpmI	CTGGAG	1 cut(s)	366
BsaBI	GATNNNNATC	1 cut(s)	261
BsaHI	GRCGYC	1 cut(s)	70
BsaJI	CCNNGG	1 cut(s)	398
Bsc4I	CCNNNNNNNGG	3 cut(s)	155, 386, 389
Bse1I	ACTGG	1 cut(s)	422
Bse8I	GATNNNNATC	1 cut(s)	261
BseBI	CCWGG	1 cut(s)	47
BseDI	CCNNGG	1 cut(s)	398
BseGI	GGATG	4 cut(s)	139, 220, 365, 394
BseJI	GATNNNNATC	1 cut(s)	261
BseLI	CCNNNNNNNGG	3 cut(s)	155, 386, 389
BseNI	ACTGG	1 cut(s)	422
BseRI	GAGGAG	1 cut(s)	369
BseXI	GCAGC	1 cut(s)	315
Bsh1236I	CGCG	1 cut(s)	400
BshFI	GGCC	1 cut(s)	87
BsiHKAI	GWGCWC	1 cut(s)	109
BslI	CCNNNNNNNGG	3 cut(s)	155, 386, 389
BsnI	GGCC	1 cut(s)	87
Bsp1286I	GDGCHC	1 cut(s)	109
Bsp143I	GATC	3 cut(s)	130, 185, 331
BspACI	CCGC	4 cut(s)	84, 169, 398, 400
BspANI	GGCC	1 cut(s)	87
BspFNI	CGCG	1 cut(s)	400
BspPI	GGATC	2 cut(s)	125, 193
BsrI	ACTGG	1 cut(s)	422
BssECI	CCNNGG	1 cut(s)	398
BssMI	GATC	3 cut(s)	130, 185, 331
BssNI	GRCGYC	1 cut(s)	70
Bst2UI	CCWGG	1 cut(s)	47
Bst4CI	ACNGT	1 cut(s)	247
BstACI	GRCGYC	1 cut(s)	70
BstDSI	CCRYGG	1 cut(s)	398
BstF5I	GGATG	4 cut(s)	139, 220, 365, 394
BstFNI	CGCG	1 cut(s)	400
BstKTI	GATC	3 cut(s)	133, 188, 334
BstMBI	GATC	3 cut(s)	130, 185, 331
BstMWI	GCNNNNNNNGC	1 cut(s)	30
BstNI	CCWGG	1 cut(s)	47
BstSCI	CCNGG	1 cut(s)	45
BstUI	CGCG	1 cut(s)	400
BstV1I	GCAGC	1 cut(s)	315
BstV2I	GAAGAC	2 cut(s)	73, 261
BstX2I	RGATCY	2 cut(s)	130, 185
BstYI	RGATCY	2 cut(s)	130, 185
BsuI	GTATCC	1 cut(s)	235
BsuRI	GGCC	1 cut(s)	87
BtgI	CCRYGG	1 cut(s)	398
BtsCI	GGATG	4 cut(s)	139, 220, 365, 394
Cfr42I	CCGCGG	1 cut(s)	401
CseI	GACGC	1 cut(s)	78
Csp6I	GTAC	1 cut(s)	115
CviAII	CATG	1 cut(s)	348
CviJI	RGCY	5 cut(s)	87, 101, 107, 306, 403
CviKI_1	RGCY	5 cut(s)	87, 101, 107, 306, 403
CviQI	GTAC	1 cut(s)	115
DpnI	GATC	3 cut(s)	132, 187, 333
DpnII	GATC	3 cut(s)	130, 185, 331
EaeI	YGGCCR	1 cut(s)	85
Ecl136II	GAGCTC	1 cut(s)	107
Eco24I	GRGCYC	1 cut(s)	109
Eco53kI	GAGCTC	1 cut(s)	107
EcoICRI	GAGCTC	1 cut(s)	107
EcoRI	GAATTC	1 cut(s)	41
EcoRII	CCWGG	1 cut(s)	45
EcoT38I	GRGCYC	1 cut(s)	109
FaeI	CATG	1 cut(s)	351
FaiI	YATR	4 cut(s)	196, 198, 336, 349
FatI	CATG	1 cut(s)	347
FauNDI	CATATG	1 cut(s)	196
FblI	GTMKAC	1 cut(s)	414
Fnu4HI	GCNGC	3 cut(s)	85, 304, 401
FokI	GGATG	4 cut(s)	126, 207, 352, 381
FriOI	GRGCYC	1 cut(s)	109
Fsp4HI	GCNGC	3 cut(s)	85, 304, 401
GluI	GCNGC	3 cut(s)	85, 304, 401
GsuI	CTGGAG	1 cut(s)	366
HaeIII	GGCC	1 cut(s)	87
HgaI	GACGC	1 cut(s)	78
Hin1I	GRCGYC	1 cut(s)	70
Hin1II	CATG	1 cut(s)	351
HinfI	GANTC	2 cut(s)	203, 286
HphI	GGTGA	1 cut(s)	212
Hpy166II	GTNNAC	2 cut(s)	392, 415
Hpy188I	TCNGA	1 cut(s)	329
Hpy188III	TCNNGA	3 cut(s)	63, 281, 383
Hpy8I	GTNNAC	2 cut(s)	392, 415
HpyAV	CCTTC	5 cut(s)	31, 69, 104, 133, 227
HpyCH4III	ACNGT	1 cut(s)	247
HpyCH4IV	ACGT	1 cut(s)	344
HpyCH4V	TGCA	1 cut(s)	165
HpyF10VI	GCNNNNNNNGC	1 cut(s)	30
HpySE526I	ACGT	1 cut(s)	344
Hsp92I	GRCGYC	1 cut(s)	70
Hsp92II	CATG	1 cut(s)	351
KspI	CCGCGG	1 cut(s)	401
Kzo9I	GATC	3 cut(s)	130, 185, 331
LmnI	GCTCC	1 cut(s)	351
LpnPI	CCDG	7 cut(s)	32, 59, 115, 224, 327, 396, 403
Lsp1109I	GCAGC	1 cut(s)	315
MaeII	ACGT	1 cut(s)	344
MalI	GATC	3 cut(s)	132, 187, 333
MboI	GATC	3 cut(s)	130, 185, 331
MboII	GAAGA	3 cut(s)	68, 78, 261
MflI	RGATCY	2 cut(s)	130, 185
MhlI	GDGCHC	1 cut(s)	109
MluCI	AATT	1 cut(s)	41
MmeI	TCCRAC	1 cut(s)	277
MnlI	CCTC	6 cut(s)	130, 293, 372, 379, 387, 390
MroXI	GAANNNNTTC	1 cut(s)	41
MspA1I	CMGCKG	1 cut(s)	400
MspR9I	CCNGG	1 cut(s)	47
MvaI	CCWGG	1 cut(s)	47
MvnI	CGCG	1 cut(s)	400
MwoI	GCNNNNNNNGC	1 cut(s)	30
NdeI	CATATG	1 cut(s)	196
NdeII	GATC	3 cut(s)	130, 185, 331
NlaIII	CATG	1 cut(s)	351
PdmI	GAANNNNTTC	1 cut(s)	41
PfeI	GAWTC	2 cut(s)	203, 286
PflMI	CCANNNNNTGG	1 cut(s)	389
PfoI	TCCNGGA	1 cut(s)	45
PkrI	GCNGC	3 cut(s)	86, 305, 402
Psp124BI	GAGCTC	1 cut(s)	109
Psp6I	CCWGG	1 cut(s)	45
PspGI	CCWGG	1 cut(s)	45
PsuI	RGATCY	2 cut(s)	130, 185
RsaI	GTAC	1 cut(s)	116
RsaNI	GTAC	1 cut(s)	115
SacI	GAGCTC	1 cut(s)	109
SacII	CCGCGG	1 cut(s)	401
SatI	GCNGC	3 cut(s)	85, 304, 401
Sau3AI	GATC	3 cut(s)	130, 185, 331
ScrFI	CCNGG	1 cut(s)	47
SduI	GDGCHC	1 cut(s)	109
SetI	ASST	7 cut(s)	61, 96, 109, 219, 308, 347, 364
Sfr303I	CCGCGG	1 cut(s)	401
SgrBI	CCGCGG	1 cut(s)	401
Sse9I	AATT	1 cut(s)	41
SsiI	CCGC	4 cut(s)	84, 169, 398, 400
SstI	GAGCTC	1 cut(s)	109
StyD4I	CCNGG	1 cut(s)	45
TaaI	ACNGT	1 cut(s)	247
TaiI	ACGT	1 cut(s)	347
TaqI	TCGA	3 cut(s)	62, 97, 272
TasI	AATT	1 cut(s)	41
TauI	GCSGC	2 cut(s)	87, 403
TfiI	GAWTC	2 cut(s)	203, 286
TseI	GCWGC	1 cut(s)	303
TspDTI	ATGAA	1 cut(s)	209
Van91I	CCANNNNNTGG	1 cut(s)	389
XapI	RAATTY	1 cut(s)	41
XmiI	GTMKAC	1 cut(s)	414
XmnI	GAANNNNTTC	1 cut(s)	41

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