Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr09

Orthogroup ID

OG0004428

Physical Location & Seq

Genomic Coordinates Reverse (-)

8492767 .. 8495591

Gene Structure 2825 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD09G1111700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGGGAGCAGTCCAAGCTGCAGAAGAAGAAATAATCACAACCCTACATCTGCACGACGTCAAACCAACCTTGCCATCTATTGATAGGTCAACATCATTGAATGATCACGAGCATCATCTAAATCTTGAAGAAGTGGAGGAGATTATAAGGTACAAATTCGAGAACAAGGTTTTGCTGCAGGAGGCTTTCACACATCCTTCCTTCGTCCCCACCGATTACTCCGGTTCATCCTACGAGCGTCTGGAGTACGTCGGGGATGCGGTGCTAAATTTGCTGTTCAGCAGAGAACAGTACCTTTTGTACACCGACTTGGCACCAGGGCCGTTGACGCGGCTCCGGGCAGCCAATGTTGATACGGAGAAGCTTGCGCGTGTGGCGATCAAGCATGGGTTGCACCGGTACCTGCGGCATAGGAAACCGTTGCTTGAAGAACAAATTCGAGAATTTACACGAGCGATTCATGAGTATCCACTGCATTCCAATGGTCTCATTGATGCTCCAAAGAACCTTGCGGACATTGTTGAGTCCACAATAGGTGCAGTTTTCATGGACTGCAACTCAATTGATATTGTGTGGAAGGTGTTCAAGGATTTGTTGGAGCCTATAATAGATCCGAAGACGATAAAGAGGCATCCGGTGTCACAACTTCATGAAGTGTGTCAAAAGAACAATCTGAAACTCCAATTTGTCGACTTGTGGGAGGAGAAACACACGGTTGAGGTTTTTATAAACGATCAGATTGTTGGAAGGGGCACTTACAGTCTCAAGAAGGAAGTTGCACAGAATAGAGCAGCAAAAGATGCATTTGACAACATGTGGAATGTGATAGGTCAGAAGAAAGACAATGTTGAAGACCACCTAAGGGACAATGGTCACTGGGAGGATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0004521 GO:0004525 GO:0004540 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016246 GO:0016441 GO:0016442 GO:0016458 GO:0016787 GO:0016788 GO:0016891 GO:0016893 GO:0019222 GO:0030422 GO:0031047 GO:0031050 GO:0031332 GO:0032296 GO:0032991 GO:0034641 GO:0035194 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043331 GO:0044237 GO:0044238 GO:0044424 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:0090502 GO:0097159 GO:0140098 GO:1901360 GO:1901363 GO:1901698 GO:1901699 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ribonucleas_3_3 Ribonuclease_3 dsrm

Protein Analysis

296

Amino Acids

34.13

Weight (kDa)

5.65

Isoelectric Point (pI)

28.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribonucleas_3_3	PF14622	55 - 184	7e-15	Ribonuclease-III-like
Ribonuclease_3	PF00636	79 - 185	2.8e-21	Ribonuclease III domain
dsrm	PF00035	212 - 271	1.1e-08	Double-stranded RNA binding motif

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: OG0004428)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G15417 AT4G15417
fragaria_vesca	FvH4_5g08550 FvH4_6g42650
malus_domestica	MD09G1111700.v1.1 MD17G1102000.v1.1
prunus_persica	Prupe.3G213200_v2.0.a1
pyrus_communis	pycom09g03630 pycom17g09640
rosa_chinensis	RchiOBHm_Chr2g0158531 RchiOBHm_Chr7g0189841
rosa_laevigata	RLG00000004582 RLG00000021094
rosa_multiflora	Rmu_co8278635.1_g000001 Rmu_sc0000512.1_g000018 Rmu_sc0005896.1_g000003 Rmu_sc0005896.1_g000004 Rmu_sc0017496.1_g000006
rosa_roxburghii	Rroxscaffold_2G00091270 Rroxscaffold_3G00265090
rosa_rugosa	Rorug02G0469800 Rorug06G0500300
rosa_samantha	Rh2AG535800 Rh2BG549000 Rh2CG519500 Rh2DG558700 Rh7AG105600 Rh7BG108400 Rh7CG110400 Rh7DG108700
rosa_wichuraiana	Rw2G044370 Rw7G009150

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	146, 728
AatII	GACGTC	1 cut(s)	60
Acc36I	ACCTGC	1 cut(s)	411
Acc65I	GGTACC	1 cut(s)	399
AccB1I	GGYRCC	2 cut(s)	313, 399
AccI	GTMKAC	1 cut(s)	690
AccII	CGCG	2 cut(s)	331, 370
AciI	CCGC	4 cut(s)	260, 331, 406, 512
AclWI	GGATC	1 cut(s)	605
AcsI	RAATTY	4 cut(s)	155, 268, 435, 443
AcyI	GRCGYC	1 cut(s)	57
AfaI	GTAC	5 cut(s)	152, 248, 293, 302, 401
AfiI	CCNNNNNNNGG	1 cut(s)	862
AflIII	ACRYGT	1 cut(s)	813
AgeI	ACCGGT	1 cut(s)	396
AgsI	TTSAA	5 cut(s)	100, 128, 428, 586, 851
AjnI	CCWGG	1 cut(s)	316
AluBI	AGCT	2 cut(s)	17, 364
AluI	AGCT	2 cut(s)	17, 364
Alw26I	GTCTC	2 cut(s)	491, 767
AlwI	GGATC	1 cut(s)	605
AoxI	GGCC	1 cut(s)	320
ApeKI	GCWGC	4 cut(s)	17, 175, 341, 791
ApoI	RAATTY	4 cut(s)	155, 268, 435, 443
AsiGI	ACCGGT	1 cut(s)	396
Asp700I	GAANNNNTTC	2 cut(s)	435, 581
Asp718I	GGTACC	1 cut(s)	399
AspLEI	GCGC	1 cut(s)	370
AspS9I	GGNCC	1 cut(s)	320
AsuC2I	CCSGG	1 cut(s)	338
AxyI	CCTNAGG	1 cut(s)	860
BaeGI	GKGCMC	1 cut(s)	755
BanI	GGYRCC	2 cut(s)	313, 399
BauI	CACGAG	2 cut(s)	107, 450
BbsI	GAAGAC	2 cut(s)	623, 858
BbvI	GCAGC	4 cut(s)	4, 162, 353, 803
BccI	CCATC	1 cut(s)	82
BceAI	ACGGC	1 cut(s)	307
BciT130I	CCWGG	1 cut(s)	318
BciVI	GTATCC	1 cut(s)	477
BclI	TGATCA	1 cut(s)	103
BcnI	CCSGG	1 cut(s)	338
BcoDI	GTCTC	2 cut(s)	491, 767
BfmI	CTRYAG	2 cut(s)	18, 176
BfuAI	ACCTGC	1 cut(s)	411
BfuI	GTATCC	1 cut(s)	477
BisI	GCNGC	6 cut(s)	18, 176, 332, 342, 407, 792
BlsI	GCNGC	6 cut(s)	19, 177, 333, 343, 408, 793
Bme1390I	CCNGG	2 cut(s)	318, 338
BmgT120I	GGNCC	1 cut(s)	320
BmiI	GGNNCC	4 cut(s)	315, 335, 401, 600
BmrFI	CCNGG	2 cut(s)	318, 338
BmrI	ACTGGG	1 cut(s)	886
BmsI	GCATC	5 cut(s)	121, 247, 484, 640, 790
BmuI	ACTGGG	1 cut(s)	886
BoxI	GACNNNNGTC	1 cut(s)	870
BpiI	GAAGAC	2 cut(s)	623, 858
BpmI	CTGGAG	1 cut(s)	263
BpuEI	CTTGAG	1 cut(s)	749
BpuMI	CCSGG	1 cut(s)	338
BsaHI	GRCGYC	1 cut(s)	57
BsaI	GGTCTC	1 cut(s)	491
BsaJI	CCNNGG	1 cut(s)	317
BsaWI	WCCGGW	3 cut(s)	221, 396, 634
Bsc4I	CCNNNNNNNGG	1 cut(s)	862
Bse118I	RCCGGY	1 cut(s)	396
Bse1I	ACTGG	1 cut(s)	881
Bse21I	CCTNAGG	1 cut(s)	860
BseBI	CCWGG	1 cut(s)	318
BseDI	CCNNGG	1 cut(s)	317
BseGI	GGATG	4 cut(s)	193, 227, 262, 631
BseLI	CCNNNNNNNGG	1 cut(s)	862
BseNI	ACTGG	1 cut(s)	881
BseRI	GAGGAG	2 cut(s)	152, 716
BseSI	GKGCMC	1 cut(s)	755
BseXI	GCAGC	4 cut(s)	4, 162, 353, 803
BsgI	GTGCAG	2 cut(s)	35, 558
Bsh1236I	CGCG	2 cut(s)	331, 370
BshFI	GGCC	1 cut(s)	322
BshNI	GGYRCC	2 cut(s)	313, 399
BshTI	ACCGGT	1 cut(s)	396
BsiSI	CCGG	4 cut(s)	222, 337, 397, 635
BslFI	GGGAC	2 cut(s)	191, 878
BslI	CCNNNNNNNGG	1 cut(s)	862
BsmAI	GTCTC	2 cut(s)	491, 767
BsmFI	GGGAC	2 cut(s)	191, 878
BsmI	GAATGC	1 cut(s)	475
BsnI	GGCC	1 cut(s)	322
Bso31I	GGTCTC	1 cut(s)	491
Bsp1286I	GDGCHC	1 cut(s)	755
Bsp1407I	TGTACA	1 cut(s)	300
Bsp143I	GATC	4 cut(s)	103, 378, 610, 733
BspACI	CCGC	4 cut(s)	260, 331, 406, 512
BspANI	GGCC	1 cut(s)	322
BspFNI	CGCG	2 cut(s)	331, 370
BspHI	TCATGA	2 cut(s)	460, 649
BspLI	GGNNCC	4 cut(s)	315, 335, 401, 600
BspMAI	CTGCAG	2 cut(s)	22, 180
BspMI	ACCTGC	1 cut(s)	411
BspPI	GGATC	1 cut(s)	605
BspT107I	GGYRCC	2 cut(s)	313, 399
BspTNI	GGTCTC	1 cut(s)	491
BsrFI	RCCGGY	1 cut(s)	396
BsrGI	TGTACA	1 cut(s)	300
BsrI	ACTGG	1 cut(s)	881
BssAI	RCCGGY	1 cut(s)	396
BssECI	CCNNGG	1 cut(s)	317
BssMI	GATC	4 cut(s)	103, 378, 610, 733
BssNI	GRCGYC	1 cut(s)	57
BssSI	CACGAG	2 cut(s)	107, 450
Bst2BI	CACGAG	2 cut(s)	107, 450
Bst2UI	CCWGG	1 cut(s)	318
Bst4CI	ACNGT	4 cut(s)	291, 420, 715, 761
BstACI	GRCGYC	1 cut(s)	57
BstAPI	GCANNNNNTGC	2 cut(s)	391, 800
BstAUI	TGTACA	1 cut(s)	300
BstC8I	GCNNGC	1 cut(s)	366
BstDEI	CTNAG	1 cut(s)	860
BstF5I	GGATG	4 cut(s)	193, 227, 262, 631
BstFNI	CGCG	2 cut(s)	331, 370
BstHHI	GCGC	1 cut(s)	370
BstKTI	GATC	4 cut(s)	106, 381, 613, 736
BstMAI	GTCTC	2 cut(s)	491, 767
BstMBI	GATC	4 cut(s)	103, 378, 610, 733
BstMWI	GCNNNNNNNGC	6 cut(s)	14, 271, 328, 374, 391, 800
BstNI	CCWGG	1 cut(s)	318
BstNSI	RCATGY	1 cut(s)	817
BstPAI	GACNNNNGTC	1 cut(s)	870
BstSCI	CCNGG	2 cut(s)	316, 336
BstSFI	CTRYAG	2 cut(s)	18, 176
BstSLI	GKGCMC	1 cut(s)	755
BstUI	CGCG	2 cut(s)	331, 370
BstV1I	GCAGC	4 cut(s)	4, 162, 353, 803
BstV2I	GAAGAC	2 cut(s)	623, 858
BstX2I	RGATCY	1 cut(s)	610
BstYI	RGATCY	1 cut(s)	610
Bsu36I	CCTNAGG	1 cut(s)	860
BsuI	GTATCC	1 cut(s)	477
BsuRI	GGCC	1 cut(s)	322
BtsCI	GGATG	4 cut(s)	193, 227, 262, 631
BtsI	GCAGTG	1 cut(s)	470
BtsIMutI	CAGTG	2 cut(s)	470, 874
BveI	ACCTGC	1 cut(s)	411
Cac8I	GCNNGC	1 cut(s)	366
CciI	TCATGA	2 cut(s)	460, 649
CfoI	GCGC	1 cut(s)	370
Cfr10I	RCCGGY	1 cut(s)	396
Cfr13I	GGNCC	1 cut(s)	320
CseI	GACGC	2 cut(s)	227, 337
Csp6I	GTAC	5 cut(s)	151, 247, 292, 301, 400
CspAI	ACCGGT	1 cut(s)	396
CviAII	CATG	5 cut(s)	386, 461, 547, 650, 814
CviJI	RGCY	7 cut(s)	17, 185, 322, 334, 344, 364, 601
CviKI_1	RGCY	7 cut(s)	17, 185, 322, 334, 344, 364, 601
CviQI	GTAC	5 cut(s)	151, 247, 292, 301, 400
DdeI	CTNAG	1 cut(s)	860
DpnI	GATC	4 cut(s)	105, 380, 612, 735
DpnII	GATC	4 cut(s)	103, 378, 610, 733
Eco31I	GGTCTC	1 cut(s)	491
Eco81I	CCTNAGG	1 cut(s)	860
EcoRII	CCWGG	1 cut(s)	316
EcoT22I	ATGCAT	1 cut(s)	805
FaeI	CATG	5 cut(s)	389, 464, 550, 653, 817
FaiI	YATR	9 cut(s)	146, 387, 411, 462, 548, 605, 651, 728, 815
FalI	AAGNNNNNCTT	2 cut(s)	739, 771
FaqI	GGGAC	2 cut(s)	191, 878
FatI	CATG	5 cut(s)	385, 460, 546, 649, 813
FbaI	TGATCA	1 cut(s)	103
FblI	GTMKAC	1 cut(s)	690
Fnu4HI	GCNGC	6 cut(s)	18, 176, 332, 342, 407, 792
FokI	GGATG	4 cut(s)	180, 214, 269, 618
Fsp4HI	GCNGC	6 cut(s)	18, 176, 332, 342, 407, 792
GlaI	GCGC	1 cut(s)	369
GluI	GCNGC	6 cut(s)	18, 176, 332, 342, 407, 792
GsuI	CTGGAG	1 cut(s)	263
HaeIII	GGCC	1 cut(s)	322
HapII	CCGG	4 cut(s)	222, 337, 397, 635
HgaI	GACGC	2 cut(s)	227, 337
HhaI	GCGC	1 cut(s)	370
Hin1I	GRCGYC	1 cut(s)	57
Hin1II	CATG	5 cut(s)	389, 464, 550, 653, 817
Hin6I	GCGC	1 cut(s)	368
HinP1I	GCGC	1 cut(s)	368
HincII	GTYRAC	3 cut(s)	90, 327, 691
HindII	GTYRAC	3 cut(s)	90, 327, 691
HindIII	AAGCTT	1 cut(s)	362
HinfI	GANTC	2 cut(s)	457, 524
HpaII	CCGG	4 cut(s)	222, 337, 397, 635
Hpy166II	GTNNAC	5 cut(s)	90, 303, 327, 528, 691
Hpy188I	TCNGA	4 cut(s)	615, 675, 738, 834
Hpy188III	TCNNGA	8 cut(s)	107, 125, 160, 242, 440, 461, 650, 766
Hpy8I	GTNNAC	5 cut(s)	90, 303, 327, 528, 691
Hpy99I	CGWCG	2 cut(s)	59, 254
HpyAV	CCTTC	5 cut(s)	207, 211, 571, 741, 763
HpyCH4III	ACNGT	4 cut(s)	291, 420, 715, 761
HpyCH4IV	ACGT	2 cut(s)	57, 249
HpyCH4V	TGCA	9 cut(s)	20, 52, 178, 394, 475, 539, 555, 779, 803
HpyF10VI	GCNNNNNNNGC	6 cut(s)	14, 271, 328, 374, 391, 800
HpyF3I	CTNAG	1 cut(s)	860
HpySE526I	ACGT	2 cut(s)	57, 249
Hsp92I	GRCGYC	1 cut(s)	57
Hsp92II	CATG	5 cut(s)	389, 464, 550, 653, 817
HspAI	GCGC	1 cut(s)	368
KpnI	GGTACC	1 cut(s)	403
Ksp22I	TGATCA	1 cut(s)	103
Kzo9I	GATC	4 cut(s)	103, 378, 610, 733
LmnI	GCTCC	4 cut(s)	5, 339, 502, 598
Lsp1109I	GCAGC	4 cut(s)	4, 162, 353, 803
LweI	GCATC	5 cut(s)	121, 247, 484, 640, 790
MaeII	ACGT	2 cut(s)	57, 249
MaeIII	GTNAC	2 cut(s)	639, 872
MalI	GATC	4 cut(s)	105, 380, 612, 735
MboI	GATC	4 cut(s)	103, 378, 610, 733
MboII	GAAGA	7 cut(s)	35, 38, 140, 440, 628, 847, 863
MfeI	CAATTG	1 cut(s)	561
MflI	RGATCY	1 cut(s)	610
MhlI	GDGCHC	1 cut(s)	755
MluCI	AATT	6 cut(s)	155, 268, 435, 443, 561, 683
MlyI	GAGTC	1 cut(s)	533
MmeI	TCCRAC	2 cut(s)	576, 724
MnlI	CCTC	6 cut(s)	130, 175, 621, 694, 712, 874
Mph1103I	ATGCAT	1 cut(s)	805
MroXI	GAANNNNTTC	2 cut(s)	435, 581
MseI	TTAA	1 cut(s)	886
MslI	CAYNNNNRTG	1 cut(s)	480
MspI	CCGG	4 cut(s)	222, 337, 397, 635
MspR9I	CCNGG	2 cut(s)	318, 338
MunI	CAATTG	1 cut(s)	561
Mva1269I	GAATGC	1 cut(s)	475
MvaI	CCWGG	1 cut(s)	318
MvnI	CGCG	2 cut(s)	331, 370
MwoI	GCNNNNNNNGC	6 cut(s)	14, 271, 328, 374, 391, 800
NciI	CCSGG	1 cut(s)	338
NdeII	GATC	4 cut(s)	103, 378, 610, 733
NlaIII	CATG	5 cut(s)	389, 464, 550, 653, 817
NlaIV	GGNNCC	4 cut(s)	315, 335, 401, 600
NmuCI	GTSAC	2 cut(s)	639, 872
NsiI	ATGCAT	1 cut(s)	805
NspI	RCATGY	1 cut(s)	817
PagI	TCATGA	2 cut(s)	460, 649
PciI	ACATGT	1 cut(s)	813
PcsI	WCGNNNNNNNCGW	1 cut(s)	210
PctI	GAATGC	1 cut(s)	475
PdmI	GAANNNNTTC	2 cut(s)	435, 581
PfeI	GAWTC	1 cut(s)	457
PinAI	ACCGGT	1 cut(s)	396
PkrI	GCNGC	6 cut(s)	19, 177, 333, 343, 408, 793
PleI	GAGTC	1 cut(s)	532
PpsI	GAGTC	1 cut(s)	532
PscI	ACATGT	1 cut(s)	813
PshAI	GACNNNNGTC	1 cut(s)	870
PsiI	TTATAA	2 cut(s)	146, 728
Psp6I	CCWGG	1 cut(s)	316
PspGI	CCWGG	1 cut(s)	316
PspN4I	GGNNCC	4 cut(s)	315, 335, 401, 600
PspPI	GGNCC	1 cut(s)	320
PstI	CTGCAG	2 cut(s)	22, 180
PsuI	RGATCY	1 cut(s)	610
RsaI	GTAC	5 cut(s)	152, 248, 293, 302, 401
RsaNI	GTAC	5 cut(s)	151, 247, 292, 301, 400
RseI	CAYNNNNRTG	1 cut(s)	480
SalI	GTCGAC	1 cut(s)	689
SaqAI	TTAA	1 cut(s)	886
SatI	GCNGC	6 cut(s)	18, 176, 332, 342, 407, 792
Sau3AI	GATC	4 cut(s)	103, 378, 610, 733
Sau96I	GGNCC	1 cut(s)	320
SchI	GAGTC	1 cut(s)	533
ScrFI	CCNGG	2 cut(s)	318, 338
SduI	GDGCHC	1 cut(s)	755
SfaNI	GCATC	5 cut(s)	121, 247, 484, 640, 790
SfcI	CTRYAG	2 cut(s)	18, 176
SmiMI	CAYNNNNRTG	1 cut(s)	480
SmlI	CTYRAG	1 cut(s)	764
SmoI	CTYRAG	1 cut(s)	764
Sse9I	AATT	6 cut(s)	155, 268, 435, 443, 561, 683
SsiI	CCGC	4 cut(s)	260, 331, 406, 512
StyD4I	CCNGG	2 cut(s)	316, 336
TaaI	ACNGT	4 cut(s)	291, 420, 715, 761
TaiI	ACGT	2 cut(s)	60, 252
TaqI	TCGA	3 cut(s)	159, 439, 690
TasI	AATT	6 cut(s)	155, 268, 435, 443, 561, 683
TatI	WGTACW	1 cut(s)	300
TauI	GCSGC	2 cut(s)	334, 409
TfiI	GAWTC	1 cut(s)	457
Tru1I	TTAA	1 cut(s)	886
Tru9I	TTAA	1 cut(s)	886
TscAI	CASTG	2 cut(s)	477, 881
TseFI	GTSAC	2 cut(s)	639, 872
TseI	GCWGC	4 cut(s)	17, 175, 341, 791
Tsp45I	GTSAC	2 cut(s)	639, 872
TspDTI	ATGAA	5 cut(s)	216, 449, 535, 638, 666
TspGWI	ACGGA	1 cut(s)	371
TspRI	CASTG	2 cut(s)	477, 881
XapI	RAATTY	4 cut(s)	155, 268, 435, 443
XceI	RCATGY	1 cut(s)	817
XmiI	GTMKAC	1 cut(s)	690
XmnI	GAANNNNTTC	2 cut(s)	435, 581
ZraI	GACGTC	1 cut(s)	58
Zsp2I	ATGCAT	1 cut(s)	805

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