Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0011799

Physical Location & Seq

Genomic Coordinates Forward (+)

6285273 .. 6288184

Gene Structure 2912 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1090200.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 693 bp

ATGTCTCCCGCTTTTCGTGGTATTGCGACGATGACTCGGGTTTATGTTGGGAATTTGGATCCTCGAGTGAACGAGAGGGATCTGGAAGATGAATTTCGGCTGTTCGGTGTTCTTCGCAATGTATGGGTTGCACGAAGACCGCCGGGATATGCATTTATTGAATTCGACGATCGCAGGGATGCTCTAGACGCGGTTCAAGCTTTGGATGTTATGAGTTTGTGTGTCTTATTTATGATCCACATTATCATTTGCATCATCGTAATATCTTCATTTATTCTGGTAAAAGTGCAAGGGTTCGTATGTCCCAATTTTTTGTCTGCAGGTAAAAATGGGTGGCGTGTGGAGCTTTCCCACAATTCTAAGGGTAGTGGAGGCCGTGGTGGTGGACGTGGGCGCGGTGGAGGAGATGACTTAAAGTGTTATGAGTGCGGTGAACCTGGCCATTTTGCTCGAGAATGTCGCATGCGTGTTGGTTCACGAGGAGGGAGTGGTGGAAGGCGCCGAAGTCCATCCCCTCGACGCCGCAGAAGTCCTAGTTATGATGGCTATGGGCGCAGGAGTTATAGTCCACGTAGGAGAAGATCACCTCCACGACGCCGTAGTGTCACACCTCCTCGACGTGGACGCAGCTACAGCAGGTCTCCTCCATATCGCCATGCTCGCCGTGCTTCACCTTATGTCAATGGGGACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010629 GO:0016070 GO:0016071 GO:0016604 GO:0016607 GO:0019219 GO:0019222 GO:0019904 GO:0031323 GO:0031324 GO:0031974 GO:0031981 GO:0033119 GO:0034097 GO:0034641 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043484 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045934 GO:0046483 GO:0048024 GO:0048025 GO:0048519 GO:0048523 GO:0050684 GO:0050686 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0065007 GO:0070013 GO:0070887 GO:0071310 GO:0071345 GO:0071704 GO:0080090 GO:0090304 GO:1901360 GO:1903311 GO:1903312 GO:1990823 GO:1990830

KEGG Pathways

Metabolic & Signaling

ko03040 ko05168 map03040 map05168

Pfam Domains

Protein Families

RRM_1 zf-CCHC

Protein Analysis

231

Amino Acids

25.96

Weight (kDa)

11.22

Isoelectric Point (pI)

96.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	14 - 69	3.7e-14	RNA recognition motif
zf-CCHC	PF00098	139 - 154	1.7e-07	Zinc knuckle

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0011799)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23860 AT1G23860 AT1G23860 AT1G23860
fragaria_vesca	FvH4_4g34770
malus_domestica	MD13G1089900.v1.1 MD16G1090200.v1.1
prunus_persica	Prupe.1G255900_v2.0.a1 Prupe.1G255900_v2.0.a1
pyrus_communis	pycom13g07840 pycom16g07730
rosa_chinensis	RchiOBHm_Chr4g0444111
rosa_roxburghii	Rroxscaffold_5G00384700
rosa_rugosa	Rorug04G0349600 Rorug04G0349700
rosa_samantha	Rh4AG410700 Rh4BG422100 Rh4CG436500
rosa_wichuraiana	Rw4G035280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	311, 627
AccB1I	GGYRCC	1 cut(s)	498
AccII	CGCG	2 cut(s)	191, 396
AciI	CCGC	6 cut(s)	9, 140, 191, 396, 429, 523
AclWI	GGATC	4 cut(s)	53, 66, 87, 229
AcoI	YGGCCR	1 cut(s)	439
AcsI	RAATTY	3 cut(s)	52, 92, 161
AcyI	GRCGYC	3 cut(s)	499, 520, 595
AfiI	CCNNNNNNNGG	1 cut(s)	620
AgsI	TTSAA	2 cut(s)	161, 197
AjiI	CACGTC	2 cut(s)	389, 620
AjnI	CCWGG	1 cut(s)	436
AluBI	AGCT	3 cut(s)	200, 346, 630
AluI	AGCT	3 cut(s)	200, 346, 630
Alw26I	GTCTC	2 cut(s)	9, 645
AlwI	GGATC	4 cut(s)	53, 66, 87, 229
Ama87I	CYCGRG	3 cut(s)	36, 63, 450
AoxI	GGCC	2 cut(s)	373, 439
ApeKI	GCWGC	1 cut(s)	627
ApoI	RAATTY	3 cut(s)	52, 92, 161
AspLEI	GCGC	3 cut(s)	396, 501, 555
AsuC2I	CCSGG	1 cut(s)	144
AsuHPI	GGTGA	3 cut(s)	443, 576, 663
AvaI	CYCGRG	3 cut(s)	36, 63, 450
BalI	TGGCCA	1 cut(s)	441
BamHI	GGATCC	1 cut(s)	58
BanI	GGYRCC	1 cut(s)	498
BauI	CACGAG	1 cut(s)	477
BbsI	GAAGAC	1 cut(s)	142
BbvI	GCAGC	1 cut(s)	639
BccI	CCATC	2 cut(s)	517, 536
BceAI	ACGGC	3 cut(s)	360, 582, 648
BciT130I	CCWGG	1 cut(s)	438
BcnI	CCSGG	1 cut(s)	144
BcoDI	GTCTC	2 cut(s)	9, 645
BfaI	CTAG	2 cut(s)	185, 534
BfmI	CTRYAG	2 cut(s)	318, 631
BfoI	RGCGCY	1 cut(s)	502
BfuAI	ACCTGC	2 cut(s)	311, 627
BisI	GCNGC	2 cut(s)	523, 628
BlsI	GCNGC	2 cut(s)	524, 629
Bme1390I	CCNGG	2 cut(s)	144, 438
BmeT110I	CYCGRG	3 cut(s)	36, 63, 450
BmgBI	CACGTC	2 cut(s)	389, 620
BmiI	GGNNCC	2 cut(s)	60, 500
BmrFI	CCNGG	2 cut(s)	144, 438
BmsI	GCATC	2 cut(s)	169, 261
BpiI	GAAGAC	1 cut(s)	142
BpuMI	CCSGG	1 cut(s)	144
BsaAI	YACGTR	1 cut(s)	572
BsaHI	GRCGYC	3 cut(s)	499, 520, 595
BsaI	GGTCTC	1 cut(s)	645
BsaJI	CCNNGG	1 cut(s)	376
BsaXI	ACNNNNNCTCC	2 cut(s)	550, 580
Bsc4I	CCNNNNNNNGG	1 cut(s)	620
Bse3DI	GCAATG	1 cut(s)	124
BseBI	CCWGG	1 cut(s)	438
BseDI	CCNNGG	1 cut(s)	376
BseGI	GGATG	3 cut(s)	184, 211, 509
BseLI	CCNNNNNNNGG	1 cut(s)	620
BseMI	GCAATG	1 cut(s)	124
BseRI	GAGGAG	4 cut(s)	417, 495, 603, 633
BseXI	GCAGC	1 cut(s)	639
Bsh1236I	CGCG	2 cut(s)	191, 396
Bsh1285I	CGRYCG	1 cut(s)	172
BshFI	GGCC	2 cut(s)	375, 441
BshNI	GGYRCC	1 cut(s)	498
BsiEI	CGRYCG	1 cut(s)	172
BsiHKCI	CYCGRG	3 cut(s)	36, 63, 450
BsiSI	CCGG	1 cut(s)	143
BslFI	GGGAC	1 cut(s)	288
BslI	CCNNNNNNNGG	1 cut(s)	620
BsmAI	GTCTC	2 cut(s)	9, 645
BsmFI	GGGAC	1 cut(s)	288
BsnI	GGCC	2 cut(s)	375, 441
Bso31I	GGTCTC	1 cut(s)	645
BsoBI	CYCGRG	3 cut(s)	36, 63, 450
Bsp143I	GATC	5 cut(s)	58, 79, 169, 234, 581
BspACI	CCGC	6 cut(s)	9, 140, 191, 396, 429, 523
BspANI	GGCC	2 cut(s)	375, 441
BspFNI	CGCG	2 cut(s)	191, 396
BspLI	GGNNCC	2 cut(s)	60, 500
BspMAI	CTGCAG	1 cut(s)	322
BspMI	ACCTGC	2 cut(s)	311, 627
BspPI	GGATC	4 cut(s)	53, 66, 87, 229
BspT107I	GGYRCC	1 cut(s)	498
BspTNI	GGTCTC	1 cut(s)	645
BsrDI	GCAATG	1 cut(s)	124
BssECI	CCNNGG	1 cut(s)	376
BssMI	GATC	5 cut(s)	58, 79, 169, 234, 581
BssNI	GRCGYC	3 cut(s)	499, 520, 595
BssSI	CACGAG	1 cut(s)	477
Bst2BI	CACGAG	1 cut(s)	477
Bst2UI	CCWGG	1 cut(s)	438
BstACI	GRCGYC	3 cut(s)	499, 520, 595
BstBAI	YACGTR	1 cut(s)	572
BstC8I	GCNNGC	2 cut(s)	464, 661
BstDEI	CTNAG	1 cut(s)	360
BstDSI	CCRYGG	1 cut(s)	376
BstF5I	GGATG	3 cut(s)	184, 211, 509
BstFNI	CGCG	2 cut(s)	191, 396
BstH2I	RGCGCY	1 cut(s)	502
BstHHI	GCGC	3 cut(s)	396, 501, 555
BstKTI	GATC	5 cut(s)	61, 82, 172, 237, 584
BstMAI	GTCTC	2 cut(s)	9, 645
BstMBI	GATC	5 cut(s)	58, 79, 169, 234, 581
BstMCI	CGRYCG	1 cut(s)	172
BstMWI	GCNNNNNNNGC	7 cut(s)	188, 197, 343, 552, 633, 660, 665
BstNI	CCWGG	1 cut(s)	438
BstNSI	RCATGY	1 cut(s)	466
BstSCI	CCNGG	2 cut(s)	142, 436
BstSFI	CTRYAG	2 cut(s)	318, 631
BstUI	CGCG	2 cut(s)	191, 396
BstV1I	GCAGC	1 cut(s)	639
BstV2I	GAAGAC	1 cut(s)	142
BstX2I	RGATCY	2 cut(s)	58, 79
BstYI	RGATCY	2 cut(s)	58, 79
BsuRI	GGCC	2 cut(s)	375, 441
BtgI	CCRYGG	1 cut(s)	376
BtrI	CACGTC	2 cut(s)	389, 620
BtsCI	GGATG	3 cut(s)	184, 211, 509
BveI	ACCTGC	2 cut(s)	311, 627
Cac8I	GCNNGC	2 cut(s)	464, 661
CfoI	GCGC	3 cut(s)	396, 501, 555
CseI	GACGC	4 cut(s)	197, 528, 603, 633
CviAII	CATG	2 cut(s)	463, 656
CviJI	RGCY	7 cut(s)	100, 200, 346, 375, 441, 546, 630
CviKI_1	RGCY	7 cut(s)	100, 200, 346, 375, 441, 546, 630
DdeI	CTNAG	1 cut(s)	360
DinI	GGCGCC	1 cut(s)	500
DpnI	GATC	5 cut(s)	60, 81, 171, 236, 583
DpnII	GATC	5 cut(s)	58, 79, 169, 234, 581
EaeI	YGGCCR	1 cut(s)	439
Eco31I	GGTCTC	1 cut(s)	645
Eco88I	CYCGRG	3 cut(s)	36, 63, 450
EcoRI	GAATTC	1 cut(s)	161
EcoRII	CCWGG	1 cut(s)	436
EcoT22I	ATGCAT	1 cut(s)	154
EgeI	GGCGCC	1 cut(s)	500
EheI	GGCGCC	1 cut(s)	500
FaeI	CATG	2 cut(s)	466, 659
FaqI	GGGAC	1 cut(s)	288
FatI	CATG	2 cut(s)	462, 655
FauI	CCCGC	1 cut(s)	16
Fnu4HI	GCNGC	2 cut(s)	523, 628
FokI	GGATG	3 cut(s)	191, 218, 496
Fsp4HI	GCNGC	2 cut(s)	523, 628
FspBI	CTAG	2 cut(s)	185, 534
GlaI	GCGC	3 cut(s)	395, 500, 554
GluI	GCNGC	2 cut(s)	523, 628
HaeII	RGCGCY	1 cut(s)	502
HaeIII	GGCC	2 cut(s)	375, 441
HapII	CCGG	1 cut(s)	143
HgaI	GACGC	4 cut(s)	197, 528, 603, 633
HhaI	GCGC	3 cut(s)	396, 501, 555
Hin1I	GRCGYC	3 cut(s)	499, 520, 595
Hin1II	CATG	2 cut(s)	466, 659
Hin6I	GCGC	3 cut(s)	394, 499, 553
HinP1I	GCGC	3 cut(s)	394, 499, 553
HindIII	AAGCTT	1 cut(s)	198
HinfI	GANTC	1 cut(s)	34
HpaII	CCGG	1 cut(s)	143
HphI	GGTGA	3 cut(s)	443, 576, 663
Hpy166II	GTNNAC	6 cut(s)	70, 386, 434, 476, 569, 623
Hpy188III	TCNNGA	4 cut(s)	83, 185, 452, 477
Hpy8I	GTNNAC	6 cut(s)	70, 386, 434, 476, 569, 623
Hpy99I	CGWCG	5 cut(s)	31, 170, 522, 597, 621
HpyAV	CCTTC	1 cut(s)	489
HpyCH4IV	ACGT	3 cut(s)	388, 571, 619
HpyCH4V	TGCA	5 cut(s)	131, 152, 252, 289, 320
HpyF10VI	GCNNNNNNNGC	7 cut(s)	188, 197, 343, 552, 633, 660, 665
HpyF3I	CTNAG	1 cut(s)	360
HpySE526I	ACGT	3 cut(s)	388, 571, 619
Hsp92I	GRCGYC	3 cut(s)	499, 520, 595
Hsp92II	CATG	2 cut(s)	466, 659
HspAI	GCGC	3 cut(s)	394, 499, 553
KasI	GGCGCC	1 cut(s)	498
Kzo9I	GATC	5 cut(s)	58, 79, 169, 234, 581
LmnI	GCTCC	1 cut(s)	343
LpnPI	CCDG	9 cut(s)	68, 156, 160, 263, 306, 423, 450, 541, 622
Lsp1109I	GCAGC	1 cut(s)	639
LweI	GCATC	2 cut(s)	169, 261
MaeI	CTAG	2 cut(s)	185, 534
MaeII	ACGT	3 cut(s)	388, 571, 619
MaeIII	GTNAC	1 cut(s)	604
MalI	GATC	5 cut(s)	60, 81, 171, 236, 583
MboI	GATC	5 cut(s)	58, 79, 169, 234, 581
MboII	GAAGA	5 cut(s)	98, 104, 147, 258, 591
MflI	RGATCY	2 cut(s)	58, 79
MlsI	TGGCCA	1 cut(s)	441
MluCI	AATT	5 cut(s)	52, 92, 161, 307, 355
MluNI	TGGCCA	1 cut(s)	441
Mly113I	GGCGCC	1 cut(s)	499
MlyI	GAGTC	1 cut(s)	28
Mox20I	TGGCCA	1 cut(s)	441
Mph1103I	ATGCAT	1 cut(s)	154
MscI	TGGCCA	1 cut(s)	441
MseI	TTAA	1 cut(s)	413
Msp20I	TGGCCA	1 cut(s)	441
MspI	CCGG	1 cut(s)	143
MspR9I	CCNGG	2 cut(s)	144, 438
MvaI	CCWGG	1 cut(s)	438
MvnI	CGCG	2 cut(s)	191, 396
MwoI	GCNNNNNNNGC	7 cut(s)	188, 197, 343, 552, 633, 660, 665
NarI	GGCGCC	1 cut(s)	499
NciI	CCSGG	1 cut(s)	144
NdeII	GATC	5 cut(s)	58, 79, 169, 234, 581
NlaIII	CATG	2 cut(s)	466, 659
NlaIV	GGNNCC	2 cut(s)	60, 500
NmuCI	GTSAC	1 cut(s)	604
NsiI	ATGCAT	1 cut(s)	154
NspI	RCATGY	1 cut(s)	466
PaeI	GCATGC	1 cut(s)	466
PaeR7I	CTCGAG	2 cut(s)	63, 450
PkrI	GCNGC	2 cut(s)	524, 629
Ple19I	CGATCG	1 cut(s)	172
PleI	GAGTC	1 cut(s)	28
PluTI	GGCGCC	1 cut(s)	502
PpsI	GAGTC	1 cut(s)	28
Ppu21I	YACGTR	1 cut(s)	572
Psp6I	CCWGG	1 cut(s)	436
PspGI	CCWGG	1 cut(s)	436
PspN4I	GGNNCC	2 cut(s)	60, 500
PspXI	VCTCGAGB	1 cut(s)	63
PstI	CTGCAG	1 cut(s)	322
PsuI	RGATCY	2 cut(s)	58, 79
PvuI	CGATCG	1 cut(s)	172
SaqAI	TTAA	1 cut(s)	413
SatI	GCNGC	2 cut(s)	523, 628
Sau3AI	GATC	5 cut(s)	58, 79, 169, 234, 581
SchI	GAGTC	1 cut(s)	28
ScrFI	CCNGG	2 cut(s)	144, 438
SfaNI	GCATC	2 cut(s)	169, 261
SfcI	CTRYAG	2 cut(s)	318, 631
SfoI	GGCGCC	1 cut(s)	500
Sfr274I	CTCGAG	2 cut(s)	63, 450
SlaI	CTCGAG	2 cut(s)	63, 450
SmlI	CTYRAG	2 cut(s)	63, 450
SmoI	CTYRAG	2 cut(s)	63, 450
SphI	GCATGC	1 cut(s)	466
Sse9I	AATT	5 cut(s)	52, 92, 161, 307, 355
SsiI	CCGC	6 cut(s)	9, 140, 191, 396, 429, 523
SspDI	GGCGCC	1 cut(s)	498
SspMI	CTAG	2 cut(s)	185, 534
StyD4I	CCNGG	2 cut(s)	142, 436
TaiI	ACGT	3 cut(s)	391, 574, 622
TaqI	TCGA	5 cut(s)	64, 165, 451, 517, 616
TasI	AATT	5 cut(s)	52, 92, 161, 307, 355
TauI	GCSGC	1 cut(s)	525
Tru1I	TTAA	1 cut(s)	413
Tru9I	TTAA	1 cut(s)	413
TseFI	GTSAC	1 cut(s)	604
TseI	GCWGC	1 cut(s)	627
Tsp45I	GTSAC	1 cut(s)	604
TspDTI	ATGAA	2 cut(s)	105, 258
XapI	RAATTY	3 cut(s)	52, 92, 161
XbaI	TCTAGA	1 cut(s)	184
XceI	RCATGY	1 cut(s)	466
XhoI	CTCGAG	2 cut(s)	63, 450
XspI	CTAG	2 cut(s)	185, 534
Zsp2I	ATGCAT	1 cut(s)	154

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