Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr10

Orthogroup ID

OG0009193

Physical Location & Seq

Genomic Coordinates Forward (+)

29286696 .. 29291901

Gene Structure 5206 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD10G1194800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 897 bp

ATGGCTGCGGTTGCTGAGATTTCCGGGGAGGCAGCCTCTGCCAAAAACTCCAACTTGGATTCAATGCCAAAACCCATGCCTGAATCCAAATCAGAATTCGATGTGCAGAAGCTGGTGGATATGTTCACCAAGCTCAACCCTTTAGCCAAAGAGTTCTTCCCTTCATCTTATTCTCACCAGCACCATTCCACTTTTGAAAACTCTTTGGCTGTCAATAACAATAAGCTCTCAGCCAATGGTAATCAGGCCAACAGTCGAAGGAGAACAAATAACTTTAATCAGGGGAAGAGAAGACTTAGTGGGAGAGCTCACAGAGCTGAGCGAGAAAATAGTATTAGGCGAACAGTATATGTTTCTGATATTGATCAGCAAGTTACTGAAGAGCGTCTTGCTGCCATATTTAGTAGTTGCGGACAAGTTGTTGACTGCCGAATTTGTGGTGATCCGCATTCAGTGCTCCGTTTTGCCTTTGTGGAGTTTGCTGATGAGTATGGTGCGAGAGCAGCTTTGAGCCTCGGTGGGACAATGCTAGGGTACTATCCTGTTAGGGTCTTACCCTCAAAAACTGCCATCCTTCCTGTGAATCCTACATTCCTCCCCAGGTCAGAAGATGAACGGGAAATGTGTAGCAGGACTGTATATTGTACAAATATCGATAAGAAGGTAGCTCAAGCTGAAGTCAAGAATTTCTTTGAAACAGCTTGCGGTGAGGTTACTCGTTTGAGGCTTTTGGGGGATCATGTGCATTCAACTCGTATAGCTTTTGTTGAATTTGCAATGGCAGAAAGTGCTATACTTGCGCTGAATTGCAGTGGAATGGTGTTGGGAACACAACCCATCAGGGTAAGTCCTTCAAAGACACCTGTGAGGCCACGCGTTACCCGTCCATTGCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0016604 GO:0016607 GO:0031974 GO:0031981 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0070013

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PAM2 RRM_1

Protein Analysis

299

Amino Acids

33.1

Weight (kDa)

9.09

Isoelectric Point (pI)

42.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RRM_1	PF00076	116 - 178	2.4e-12	RNA recognition motif
RRM_1	PF00076	213 - 280	2.4e-08	RNA recognition motif

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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

Orthologous Genes (Group: OG0009193)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G53650 AT1G53650 AT3G14450
fragaria_vesca	FvH4_3g16680 FvH4_3g16680
malus_domestica	MD05G1208300.v1.1 MD10G1194800.v1.1
prunus_persica	Prupe.4G149200_v2.0.a1 Prupe.4G149200_v2.0.a1
pyrus_communis	pycom05g19400 pycom10g16820
rosa_chinensis	RchiOBHm_Chr5g0027791
rosa_laevigata	RLG00000033043
rosa_multiflora	Rmu_sc0000920.1_g000007
rosa_roxburghii	Rroxscaffold_1G00051820
rosa_rugosa	Rorug05G0101100 Rorug05G0101200
rosa_samantha	Rh5AG195400 Rh5BG193700 Rh5CG214000 Rh5DG195700
rosa_wichuraiana	Rw5G017830

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	876
AciI	CCGC	4 cut(s)	8, 411, 446, 705
AclWI	GGATC	2 cut(s)	437, 744
AcsI	RAATTY	4 cut(s)	95, 432, 685, 770
AcuI	CTGAAG	2 cut(s)	399, 696
AfaI	GTAC	2 cut(s)	536, 646
AflIII	ACRYGT	1 cut(s)	874
AgsI	TTSAA	6 cut(s)	63, 197, 695, 750, 770, 855
AjnI	CCWGG	1 cut(s)	599
AjuI	GAANNNNNNNTTGG	4 cut(s)	80, 112, 140, 172
Alw21I	GWGCWC	2 cut(s)	310, 459
AlwI	GGATC	2 cut(s)	437, 744
AlwNI	CAGNNNCTG	2 cut(s)	38, 112
AoxI	GGCC	2 cut(s)	246, 869
ApeKI	GCWGC	4 cut(s)	5, 32, 392, 503
ApoI	RAATTY	4 cut(s)	95, 432, 685, 770
AspLEI	GCGC	1 cut(s)	802
AsuC2I	CCSGG	1 cut(s)	25
AsuHPI	GGTGA	4 cut(s)	118, 167, 452, 719
BanII	GRGCYC	1 cut(s)	310
BbsI	GAAGAC	1 cut(s)	298
Bbv12I	GWGCWC	2 cut(s)	310, 459
BbvI	GCAGC	3 cut(s)	44, 379, 515
BccI	CCATC	2 cut(s)	578, 845
BcgI	CGANNNNNNTGC	2 cut(s)	734, 768
BciT130I	CCWGG	1 cut(s)	601
BclI	TGATCA	1 cut(s)	364
BcnI	CCSGG	1 cut(s)	25
BfaI	CTAG	1 cut(s)	530
BisI	GCNGC	4 cut(s)	6, 33, 393, 504
BlpI	GCTNAGC	1 cut(s)	318
BlsI	GCNGC	4 cut(s)	7, 34, 394, 505
Bme1390I	CCNGG	2 cut(s)	25, 601
BmrFI	CCNGG	2 cut(s)	25, 601
BpiI	GAAGAC	1 cut(s)	298
BplI	GAGNNNNNCTC	2 cut(s)	20, 52
Bpu1102I	GCTNAGC	1 cut(s)	318
BpuEI	CTTGAG	1 cut(s)	654
BpuMI	CCSGG	1 cut(s)	25
Bsa29I	ATCGAT	1 cut(s)	654
BsaBI	GATNNNNATC	1 cut(s)	363
BsaJI	CCNNGG	3 cut(s)	24, 514, 599
Bse3DI	GCAATG	2 cut(s)	783, 887
Bse8I	GATNNNNATC	1 cut(s)	363
BseBI	CCWGG	1 cut(s)	601
BseCI	ATCGAT	1 cut(s)	654
BseDI	CCNNGG	3 cut(s)	24, 514, 599
BseGI	GGATG	1 cut(s)	570
BseJI	GATNNNNATC	1 cut(s)	363
BseMI	GCAATG	2 cut(s)	783, 887
BseMII	CTCAG	3 cut(s)	6, 243, 309
BseXI	GCAGC	3 cut(s)	44, 379, 515
BsgI	GTGCAG	1 cut(s)	125
Bsh1236I	CGCG	1 cut(s)	876
BshFI	GGCC	2 cut(s)	248, 871
BshVI	ATCGAT	1 cut(s)	654
BsiHKAI	GWGCWC	2 cut(s)	310, 459
BsiSI	CCGG	1 cut(s)	24
BslFI	GGGAC	1 cut(s)	535
BsmFI	GGGAC	1 cut(s)	535
BsmI	GAATGC	2 cut(s)	448, 745
BsnI	GGCC	2 cut(s)	248, 871
Bsp1286I	GDGCHC	2 cut(s)	310, 459
Bsp1407I	TGTACA	1 cut(s)	644
Bsp143I	GATC	3 cut(s)	364, 442, 736
Bsp1720I	GCTNAGC	1 cut(s)	318
BspACI	CCGC	4 cut(s)	8, 411, 446, 705
BspANI	GGCC	2 cut(s)	248, 871
BspCNI	CTCAG	3 cut(s)	7, 242, 310
BspDI	ATCGAT	1 cut(s)	654
BspFNI	CGCG	1 cut(s)	876
BspPI	GGATC	2 cut(s)	437, 744
BspQI	GCTCTTC	1 cut(s)	375
BsrDI	GCAATG	2 cut(s)	783, 887
BsrGI	TGTACA	1 cut(s)	644
BssECI	CCNNGG	3 cut(s)	24, 514, 599
BssMI	GATC	3 cut(s)	364, 442, 736
Bst2UI	CCWGG	1 cut(s)	601
Bst4CI	ACNGT	3 cut(s)	254, 346, 637
Bst6I	CTCTTC	2 cut(s)	281, 375
BstAPI	GCANNNNNTGC	3 cut(s)	38, 454, 788
BstAUI	TGTACA	1 cut(s)	644
BstC8I	GCNNGC	1 cut(s)	703
BstDEI	CTNAG	4 cut(s)	15, 229, 296, 318
BstF5I	GGATG	1 cut(s)	570
BstFNI	CGCG	1 cut(s)	876
BstHHI	GCGC	1 cut(s)	802
BstKTI	GATC	3 cut(s)	367, 445, 739
BstMBI	GATC	3 cut(s)	364, 442, 736
BstMWI	GCNNNNNNNGC	7 cut(s)	11, 38, 314, 454, 503, 788, 797
BstNI	CCWGG	1 cut(s)	601
BstSCI	CCNGG	2 cut(s)	23, 599
BstUI	CGCG	1 cut(s)	876
BstV1I	GCAGC	3 cut(s)	44, 379, 515
BstV2I	GAAGAC	1 cut(s)	298
Bsu15I	ATCGAT	1 cut(s)	654
BsuRI	GGCC	2 cut(s)	248, 871
BsuTUI	ATCGAT	1 cut(s)	654
BtsCI	GGATG	1 cut(s)	570
BtsI	GCAGTG	1 cut(s)	817
BtsIMutI	CAGTG	2 cut(s)	459, 817
Cac8I	GCNNGC	1 cut(s)	703
CaiI	CAGNNNCTG	2 cut(s)	38, 112
CfoI	GCGC	1 cut(s)	802
ClaI	ATCGAT	1 cut(s)	654
CseI	GACGC	1 cut(s)	374
Csp6I	GTAC	2 cut(s)	535, 645
CviAII	CATG	2 cut(s)	76, 740
CviQI	GTAC	2 cut(s)	535, 645
DdeI	CTNAG	4 cut(s)	15, 229, 296, 318
DpnI	GATC	3 cut(s)	366, 444, 738
DpnII	GATC	3 cut(s)	364, 442, 736
Eam1104I	CTCTTC	2 cut(s)	281, 375
EarI	CTCTTC	2 cut(s)	281, 375
Ecl136II	GAGCTC	1 cut(s)	308
Eco24I	GRGCYC	1 cut(s)	310
Eco53kI	GAGCTC	1 cut(s)	308
Eco57I	CTGAAG	2 cut(s)	399, 696
EcoICRI	GAGCTC	1 cut(s)	308
EcoRI	GAATTC	1 cut(s)	95
EcoRII	CCWGG	1 cut(s)	599
EcoT38I	GRGCYC	1 cut(s)	310
FaeI	CATG	2 cut(s)	79, 743
FalI	AAGNNNNNCTT	4 cut(s)	372, 404, 674, 706
FaqI	GGGAC	1 cut(s)	535
FatI	CATG	2 cut(s)	75, 739
FbaI	TGATCA	1 cut(s)	364
Fnu4HI	GCNGC	4 cut(s)	6, 33, 393, 504
FokI	GGATG	1 cut(s)	557
FriOI	GRGCYC	1 cut(s)	310
Fsp4HI	GCNGC	4 cut(s)	6, 33, 393, 504
FspBI	CTAG	1 cut(s)	530
GlaI	GCGC	1 cut(s)	801
GluI	GCNGC	4 cut(s)	6, 33, 393, 504
HaeIII	GGCC	2 cut(s)	248, 871
HapII	CCGG	1 cut(s)	24
HgaI	GACGC	1 cut(s)	374
HhaI	GCGC	1 cut(s)	802
Hin1II	CATG	2 cut(s)	79, 743
Hin6I	GCGC	1 cut(s)	800
HinP1I	GCGC	1 cut(s)	800
HincII	GTYRAC	1 cut(s)	424
HindII	GTYRAC	1 cut(s)	424
HinfI	GANTC	3 cut(s)	59, 83, 583
HpaII	CCGG	1 cut(s)	24
HphI	GGTGA	4 cut(s)	118, 167, 452, 719
Hpy166II	GTNNAC	2 cut(s)	126, 424
Hpy188I	TCNGA	3 cut(s)	94, 358, 607
Hpy188III	TCNNGA	1 cut(s)	682
Hpy8I	GTNNAC	2 cut(s)	126, 424
HpyAV	CCTTC	5 cut(s)	171, 252, 584, 655, 861
HpyCH4III	ACNGT	3 cut(s)	254, 346, 637
HpyCH4V	TGCA	5 cut(s)	106, 745, 776, 810, 892
HpyF10VI	GCNNNNNNNGC	7 cut(s)	11, 38, 314, 454, 503, 788, 797
HpyF3I	CTNAG	4 cut(s)	15, 229, 296, 318
Hsp92II	CATG	2 cut(s)	79, 743
HspAI	GCGC	1 cut(s)	800
Ksp22I	TGATCA	1 cut(s)	364
Kzo9I	GATC	3 cut(s)	364, 442, 736
LguI	GCTCTTC	1 cut(s)	375
LmnI	GCTCC	1 cut(s)	462
Lsp1109I	GCAGC	3 cut(s)	44, 379, 515
MaeI	CTAG	1 cut(s)	530
MaeIII	GTNAC	3 cut(s)	373, 712, 877
MalI	GATC	3 cut(s)	366, 444, 738
MboI	GATC	3 cut(s)	364, 442, 736
MboII	GAAGA	5 cut(s)	148, 298, 303, 392, 620
MhlI	GDGCHC	2 cut(s)	310, 459
MluCI	AATT	5 cut(s)	95, 432, 685, 770, 805
MluI	ACGCGT	1 cut(s)	874
MmeI	TCCRAC	1 cut(s)	75
MnlI	CCTC	8 cut(s)	22, 46, 524, 568, 605, 703, 717, 861
MseI	TTAA	2 cut(s)	276, 895
MspI	CCGG	1 cut(s)	24
MspR9I	CCNGG	2 cut(s)	25, 601
Mva1269I	GAATGC	2 cut(s)	448, 745
MvaI	CCWGG	1 cut(s)	601
MvnI	CGCG	1 cut(s)	876
MwoI	GCNNNNNNNGC	7 cut(s)	11, 38, 314, 454, 503, 788, 797
NciI	CCSGG	1 cut(s)	25
NdeII	GATC	3 cut(s)	364, 442, 736
NlaIII	CATG	2 cut(s)	79, 743
PciSI	GCTCTTC	1 cut(s)	375
PcsI	WCGNNNNNNNCGW	1 cut(s)	880
PctI	GAATGC	2 cut(s)	448, 745
PfeI	GAWTC	3 cut(s)	59, 83, 583
PkrI	GCNGC	4 cut(s)	7, 34, 394, 505
Psp124BI	GAGCTC	1 cut(s)	310
Psp6I	CCWGG	1 cut(s)	599
PspGI	CCWGG	1 cut(s)	599
PstNI	CAGNNNCTG	2 cut(s)	38, 112
RsaI	GTAC	2 cut(s)	536, 646
RsaNI	GTAC	2 cut(s)	535, 645
SacI	GAGCTC	1 cut(s)	310
SapI	GCTCTTC	1 cut(s)	375
SaqAI	TTAA	2 cut(s)	276, 895
SatI	GCNGC	4 cut(s)	6, 33, 393, 504
Sau3AI	GATC	3 cut(s)	364, 442, 736
ScrFI	CCNGG	2 cut(s)	25, 601
SduI	GDGCHC	2 cut(s)	310, 459
SmlI	CTYRAG	1 cut(s)	669
SmoI	CTYRAG	1 cut(s)	669
Sse9I	AATT	5 cut(s)	95, 432, 685, 770, 805
SsiI	CCGC	4 cut(s)	8, 411, 446, 705
SspMI	CTAG	1 cut(s)	530
SstI	GAGCTC	1 cut(s)	310
StyD4I	CCNGG	2 cut(s)	23, 599
TaaI	ACNGT	3 cut(s)	254, 346, 637
TaqI	TCGA	3 cut(s)	99, 256, 654
TasI	AATT	5 cut(s)	95, 432, 685, 770, 805
TatI	WGTACW	1 cut(s)	644
TfiI	GAWTC	3 cut(s)	59, 83, 583
Tru1I	TTAA	2 cut(s)	276, 895
Tru9I	TTAA	2 cut(s)	276, 895
TscAI	CASTG	2 cut(s)	459, 817
TseI	GCWGC	4 cut(s)	5, 32, 392, 503
TspDTI	ATGAA	2 cut(s)	153, 627
TspGWI	ACGGA	1 cut(s)	449
TspRI	CASTG	2 cut(s)	459, 817
XapI	RAATTY	4 cut(s)	95, 432, 685, 770
XspI	CTAG	1 cut(s)	530

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