Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr11

Orthogroup ID

OG0003541

Physical Location & Seq

Genomic Coordinates Forward (+)

11099517 .. 11103242

Gene Structure 3726 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD11G1120900.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1116 bp

ATGGCGAACAAGCTCATCAACCAGATGGGCCTCCCCAAATCCATCGCCAACGTTTTCACCGCTCGTAACATCACCACCGCCAAGGAAGCTCTGTCGTTAACCGAATTCGAATTAATGGAGGTATTAGATGTGAATTTGGCAGAAGTCACGTCTGCGATAGCCCGCATCAGTGAAATCACATGTCCTCCCTATCAAACCGTGCTAAGTCTAATGGAGCAACAGGTTCAGAAGGAACACAATGGCGGTCACCTTTCGACGCGCCTCAAAGGCCTAGACGATGCCTTGTGTGGTGGCATTCCATTTGGGGTTTTGACAGAGTTGGTTGGTCCTGCTGGCATTGGCAAAACACAGTTCTGTCTGAAGCTTGCATTGTTGGCTTCGTTGCCAGAAGCTTATGGAGGTTTAGATGGTCGGGTAATATACATCGATGTAGAATCCAAATTTAGTTCGAGAAGGATGATAGAAATTGGATCAAAGAGTTTCCCAGAAATATTTCACAAGAAAGGAATGGCACAAGAGATGGCTGGTAGGATTCTTGTTATGCGGCCGACATCACTTTCTGAGTTCACTGAGAGTTTGCAACAACTCAAGATCTCACTCCTTCAAAACCAAGTGAAGTTGCTAATTATTGATAGCATGGCTGCTCTTGTTGCAGGGGAACAGGGGCAGGGCGCACCTAGGCAGCATCTACTGGGTTGGCATATTTCCTTTATTAAGTCACTTGCTGAATTTTCACGCATCCCTATTGTTGTTACGAACCAAGTGAGATCTCAAATTCATGATGAAGCCTGCCAGTATGCTTTTCAAGTGCAGCACAGGGAAAAAGCATTACATGAACATACAGAATATGATTCTCATCTTGTTGCTGCTTTGGGGATTCACTGGGCTCATGCTGTGACCATACGTCTTGTGCTTGATTCTAAATCTGGGAAGAGGTTCATCAAGCTGGCAAAGTCTCCGATATCACCCCCTCTGGCCTTCGCGTTCAACATAACATCATCTGGAATCTCATTGCTAAGCGATGGTGGAATAGAACTGACAGGACCAGAGATAAACACAATTCATTGCCAAGGACACAGCGACATAATTAATTTTGACGGGAAAAGGTTTCAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0000150 GO:0000217 GO:0000280 GO:0000400 GO:0000707 GO:0000724 GO:0000725 GO:0000730 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003824 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005694 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006310 GO:0006312 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007049 GO:0007127 GO:0007131 GO:0008094 GO:0008150 GO:0008152 GO:0009314 GO:0009628 GO:0009987 GO:0010212 GO:0016043 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022402 GO:0022414 GO:0022607 GO:0032991 GO:0033061 GO:0033063 GO:0033554 GO:0034622 GO:0034641 GO:0035825 GO:0042148 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044464 GO:0045003 GO:0046483 GO:0048285 GO:0050896 GO:0051321 GO:0051716 GO:0061982 GO:0065003 GO:0065004 GO:0071704 GO:0071824 GO:0071840 GO:0090304 GO:0090735 GO:0097159 GO:0140013 GO:0140097 GO:1901360 GO:1901363 GO:1903046

KEGG Pathways

Metabolic & Signaling

ko03440 map03440

Pfam Domains

Protein Families

Rad51

Protein Analysis

372

Amino Acids

40.7

Weight (kDa)

6.93

Isoelectric Point (pI)

42.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HHH_XRCC3_RpoA	PF26169	6 - 59	2.2e-19	XRCC3/RpoA-like, helix-hairpin-helix domain
Rad51	PF08423	84 - 337	7.4e-29	Rad51
AAA_25	PF13481	87 - 220	7.9e-07	AAA domain

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: OG0003541)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28560 AT2G28560 AT2G28560 AT2G28560 AT2G28560 AT2G28560
fragaria_vesca	FvH4_3g33990 FvH4_3g33990 FvH4_3g33990 FvH4_3g33990 FvH4_3g33990 FvH4_3g33990
malus_domestica	MD11G1120900.v1.1
prunus_persica	Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1 Prupe.6G090900_v2.0.a1
pyrus_communis	pycom11g10220
rosa_chinensis	RchiOBHm_Chr5g0061521
rosa_laevigata	RLG00000035484
rosa_multiflora	Rmu_co8481717.1_g000001 Rmu_sc0006720.1_g000001 Rmu_sc0010824.1_g000011
rosa_roxburghii	Rroxscaffold_1G00019150
rosa_rugosa	Rorug05G0341400 Rorug05G0341500 Rorug05G0341600 Rorug05G0341700
rosa_samantha	Rh5AG403500 Rh5BG415700 Rh5CG440400 Rh5DG430200
rosa_wichuraiana	Rw5G037930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	62
AccII	CGCG	2 cut(s)	259, 983
AciI	CCGC	5 cut(s)	60, 78, 163, 243, 544
AclI	AACGTT	1 cut(s)	51
AclWI	GGATC	1 cut(s)	478
AcoI	YGGCCR	1 cut(s)	545
AcsI	RAATTY	5 cut(s)	104, 133, 440, 728, 774
AcuI	CTGAAG	1 cut(s)	380
AflIII	ACRYGT	1 cut(s)	179
AgsI	TTSAA	3 cut(s)	605, 806, 988
AhdI	GACNNNNNGTC	1 cut(s)	903
AjiI	CACGTC	1 cut(s)	150
AluBI	AGCT	5 cut(s)	13, 89, 364, 392, 946
AluI	AGCT	5 cut(s)	13, 89, 364, 392, 946
Alw26I	GTCTC	1 cut(s)	960
AlwI	GGATC	1 cut(s)	478
AoxI	GGCC	4 cut(s)	28, 268, 545, 975
ApeKI	GCWGC	4 cut(s)	641, 682, 811, 866
ApoI	RAATTY	5 cut(s)	104, 133, 440, 728, 774
AseI	ATTAAT	2 cut(s)	113, 1089
Asp700I	GAANNNNTTC	2 cut(s)	492, 935
AspA2I	CCTAGG	1 cut(s)	677
AspLEI	GCGC	2 cut(s)	261, 674
AspS9I	GGNCC	3 cut(s)	28, 326, 1043
AsuHPI	GGTGA	4 cut(s)	49, 64, 239, 957
AsuII	TTCGAA	1 cut(s)	108
AvaII	GGWCC	2 cut(s)	326, 1043
AvrII	CCTAGG	1 cut(s)	677
BanII	GRGCYC	1 cut(s)	889
BbvI	GCAGC	4 cut(s)	628, 694, 823, 853
BccI	CCATC	5 cut(s)	19, 50, 401, 514, 1016
BcoDI	GTCTC	1 cut(s)	960
BfaI	CTAG	2 cut(s)	272, 678
BglI	GCCNNNNNGGC	1 cut(s)	267
BglII	AGATCT	2 cut(s)	591, 767
BisI	GCNGC	5 cut(s)	545, 642, 683, 812, 867
BlnI	CCTAGG	1 cut(s)	677
BlpI	GCTNAGC	1 cut(s)	1016
BlsI	GCNGC	5 cut(s)	546, 643, 684, 813, 868
Bme18I	GGWCC	2 cut(s)	326, 1043
BmeRI	GACNNNNNGTC	1 cut(s)	903
BmgBI	CACGTC	1 cut(s)	150
BmgT120I	GGNCC	3 cut(s)	28, 326, 1043
BmrI	ACTGGG	2 cut(s)	701, 892
BmsI	GCATC	4 cut(s)	174, 268, 694, 747
BmuI	ACTGGG	2 cut(s)	701, 892
Bpu1102I	GCTNAGC	1 cut(s)	1016
Bpu14I	TTCGAA	1 cut(s)	108
BpuEI	CTTGAG	1 cut(s)	572
Bsa29I	ATCGAT	1 cut(s)	426
BsaBI	GATNNNNATC	1 cut(s)	855
BsaJI	CCNNGG	3 cut(s)	81, 677, 1069
BsaXI	ACNNNNNCTCC	2 cut(s)	169, 199
Bse1I	ACTGG	3 cut(s)	696, 793, 887
Bse3DI	GCAATG	2 cut(s)	1010, 1063
Bse8I	GATNNNNATC	1 cut(s)	855
BseCI	ATCGAT	1 cut(s)	426
BseDI	CCNNGG	3 cut(s)	81, 677, 1069
BseGI	GGATG	2 cut(s)	462, 738
BseJI	GATNNNNATC	1 cut(s)	855
BseMI	GCAATG	2 cut(s)	1010, 1063
BseMII	CTCAG	2 cut(s)	552, 561
BseNI	ACTGG	3 cut(s)	696, 793, 887
BseX3I	CGGCCG	1 cut(s)	545
BseXI	GCAGC	4 cut(s)	628, 694, 823, 853
BsgI	GTGCAG	1 cut(s)	830
Bsh1236I	CGCG	2 cut(s)	259, 983
Bsh1285I	CGRYCG	1 cut(s)	548
BshFI	GGCC	4 cut(s)	30, 270, 547, 977
BshVI	ATCGAT	1 cut(s)	426
BsiEI	CGRYCG	1 cut(s)	548
BsmAI	GTCTC	1 cut(s)	960
BsmI	GAATGC	1 cut(s)	294
BsnI	GGCC	4 cut(s)	30, 270, 547, 977
Bsp119I	TTCGAA	1 cut(s)	108
Bsp1286I	GDGCHC	1 cut(s)	889
Bsp143I	GATC	3 cut(s)	470, 591, 767
Bsp1720I	GCTNAGC	1 cut(s)	1016
BspACI	CCGC	5 cut(s)	60, 78, 163, 243, 544
BspANI	GGCC	4 cut(s)	30, 270, 547, 977
BspCNI	CTCAG	2 cut(s)	553, 562
BspDI	ATCGAT	1 cut(s)	426
BspFNI	CGCG	2 cut(s)	259, 983
BspHI	TCATGA	1 cut(s)	778
BspPI	GGATC	1 cut(s)	478
BspT104I	TTCGAA	1 cut(s)	108
BsrBI	CCGCTC	1 cut(s)	62
BsrDI	GCAATG	2 cut(s)	1010, 1063
BsrI	ACTGG	3 cut(s)	696, 793, 887
BssECI	CCNNGG	3 cut(s)	81, 677, 1069
BssMI	GATC	3 cut(s)	470, 591, 767
BssT1I	CCWWGG	3 cut(s)	81, 677, 1069
Bst4CI	ACNGT	2 cut(s)	199, 351
Bst6I	CTCTTC	1 cut(s)	926
BstBI	TTCGAA	1 cut(s)	108
BstC8I	GCNNGC	5 cut(s)	163, 334, 366, 790, 948
BstDEI	CTNAG	4 cut(s)	203, 561, 570, 1016
BstEII	GGTNACC	1 cut(s)	245
BstF5I	GGATG	2 cut(s)	462, 738
BstFNI	CGCG	2 cut(s)	259, 983
BstHHI	GCGC	2 cut(s)	261, 674
BstKTI	GATC	3 cut(s)	473, 594, 770
BstMAI	GTCTC	1 cut(s)	960
BstMBI	GATC	3 cut(s)	470, 591, 767
BstMCI	CGRYCG	1 cut(s)	548
BstMWI	GCNNNNNNNGC	4 cut(s)	86, 267, 374, 650
BstNSI	RCATGY	1 cut(s)	183
BstPI	GGTNACC	1 cut(s)	245
BstUI	CGCG	2 cut(s)	259, 983
BstV1I	GCAGC	4 cut(s)	628, 694, 823, 853
BstX2I	RGATCY	2 cut(s)	591, 767
BstYI	RGATCY	2 cut(s)	591, 767
BstZI	CGGCCG	1 cut(s)	545
Bsu15I	ATCGAT	1 cut(s)	426
BsuRI	GGCC	4 cut(s)	30, 270, 547, 977
BsuTUI	ATCGAT	1 cut(s)	426
BtgZI	GCGATG	2 cut(s)	28, 1035
BtrI	CACGTC	1 cut(s)	150
BtsCI	GGATG	2 cut(s)	462, 738
BtsIMutI	CAGTG	3 cut(s)	175, 567, 880
Cac8I	GCNNGC	5 cut(s)	163, 334, 366, 790, 948
CciI	TCATGA	1 cut(s)	778
CfoI	GCGC	2 cut(s)	261, 674
Cfr13I	GGNCC	3 cut(s)	28, 326, 1043
ClaI	ATCGAT	1 cut(s)	426
CseI	GACGC	1 cut(s)	265
CviAII	CATG	5 cut(s)	180, 637, 779, 833, 890
DdeI	CTNAG	4 cut(s)	203, 561, 570, 1016
DpnI	GATC	3 cut(s)	472, 593, 769
DpnII	GATC	3 cut(s)	470, 591, 767
DriI	GACNNNNNGTC	1 cut(s)	903
EaeI	YGGCCR	1 cut(s)	545
EagI	CGGCCG	1 cut(s)	545
Eam1104I	CTCTTC	1 cut(s)	926
Eam1105I	GACNNNNNGTC	1 cut(s)	903
EarI	CTCTTC	1 cut(s)	926
EclXI	CGGCCG	1 cut(s)	545
Eco130I	CCWWGG	3 cut(s)	81, 677, 1069
Eco147I	AGGCCT	1 cut(s)	270
Eco24I	GRGCYC	1 cut(s)	889
Eco32I	GATATC	1 cut(s)	963
Eco47I	GGWCC	2 cut(s)	326, 1043
Eco52I	CGGCCG	1 cut(s)	545
Eco57I	CTGAAG	1 cut(s)	380
Eco91I	GGTNACC	1 cut(s)	245
EcoO65I	GGTNACC	1 cut(s)	245
EcoRI	GAATTC	1 cut(s)	104
EcoRV	GATATC	1 cut(s)	963
EcoT14I	CCWWGG	3 cut(s)	81, 677, 1069
EcoT38I	GRGCYC	1 cut(s)	889
ErhI	CCWWGG	3 cut(s)	81, 677, 1069
FaeI	CATG	5 cut(s)	183, 640, 782, 836, 893
FatI	CATG	5 cut(s)	179, 636, 778, 832, 889
FauI	CCCGC	1 cut(s)	170
Fnu4HI	GCNGC	5 cut(s)	545, 642, 683, 812, 867
FokI	GGATG	2 cut(s)	469, 725
FriOI	GRGCYC	1 cut(s)	889
Fsp4HI	GCNGC	5 cut(s)	545, 642, 683, 812, 867
FspBI	CTAG	2 cut(s)	272, 678
GlaI	GCGC	2 cut(s)	260, 673
GluI	GCNGC	5 cut(s)	545, 642, 683, 812, 867
HaeIII	GGCC	4 cut(s)	30, 270, 547, 977
HgaI	GACGC	1 cut(s)	265
HhaI	GCGC	2 cut(s)	261, 674
Hin1II	CATG	5 cut(s)	183, 640, 782, 836, 893
Hin6I	GCGC	2 cut(s)	259, 672
HinP1I	GCGC	2 cut(s)	259, 672
HincII	GTYRAC	1 cut(s)	99
HindII	GTYRAC	1 cut(s)	99
HindIII	AAGCTT	2 cut(s)	362, 390
HinfI	GANTC	6 cut(s)	434, 532, 851, 877, 917, 1005
HpaI	GTTAAC	1 cut(s)	99
HphI	GGTGA	4 cut(s)	49, 64, 239, 957
Hpy166II	GTNNAC	2 cut(s)	99, 567
Hpy188I	TCNGA	4 cut(s)	228, 360, 562, 960
Hpy188III	TCNNGA	4 cut(s)	450, 589, 779, 1002
Hpy8I	GTNNAC	2 cut(s)	99, 567
Hpy99I	CGWCG	1 cut(s)	259
HpyAV	CCTTC	4 cut(s)	223, 447, 611, 988
HpyCH4III	ACNGT	2 cut(s)	199, 351
HpyCH4IV	ACGT	3 cut(s)	51, 149, 904
HpyCH4V	TGCA	4 cut(s)	368, 580, 653, 811
HpyF10VI	GCNNNNNNNGC	4 cut(s)	86, 267, 374, 650
HpyF3I	CTNAG	4 cut(s)	203, 561, 570, 1016
HpySE526I	ACGT	3 cut(s)	51, 149, 904
Hsp92II	CATG	5 cut(s)	183, 640, 782, 836, 893
HspAI	GCGC	2 cut(s)	259, 672
KspAI	GTTAAC	1 cut(s)	99
Kzo9I	GATC	3 cut(s)	470, 591, 767
LmnI	GCTCC	1 cut(s)	214
Lsp1109I	GCAGC	4 cut(s)	628, 694, 823, 853
LweI	GCATC	4 cut(s)	174, 268, 694, 747
MaeI	CTAG	2 cut(s)	272, 678
MaeII	ACGT	3 cut(s)	51, 149, 904
MaeIII	GTNAC	6 cut(s)	65, 145, 245, 717, 751, 895
MalI	GATC	3 cut(s)	472, 593, 769
MbiI	CCGCTC	1 cut(s)	62
MboI	GATC	3 cut(s)	470, 591, 767
MboII	GAAGA	1 cut(s)	943
MflI	RGATCY	2 cut(s)	591, 767
MhlI	GDGCHC	1 cut(s)	889
MnlI	CCTC	7 cut(s)	41, 112, 195, 272, 392, 927, 981
MroXI	GAANNNNTTC	2 cut(s)	492, 935
MseI	TTAA	4 cut(s)	98, 113, 714, 1089
Mva1269I	GAATGC	1 cut(s)	294
MvnI	CGCG	2 cut(s)	259, 983
MwoI	GCNNNNNNNGC	4 cut(s)	86, 267, 374, 650
NdeII	GATC	3 cut(s)	470, 591, 767
NlaIII	CATG	5 cut(s)	183, 640, 782, 836, 893
NmuCI	GTSAC	4 cut(s)	145, 245, 717, 895
NspI	RCATGY	1 cut(s)	183
NspV	TTCGAA	1 cut(s)	108
PagI	TCATGA	1 cut(s)	778
PceI	AGGCCT	1 cut(s)	270
PciI	ACATGT	1 cut(s)	179
PctI	GAATGC	1 cut(s)	294
PdmI	GAANNNNTTC	2 cut(s)	492, 935
PfeI	GAWTC	6 cut(s)	434, 532, 851, 877, 917, 1005
PkrI	GCNGC	5 cut(s)	546, 643, 684, 813, 868
PscI	ACATGT	1 cut(s)	179
PshBI	ATTAAT	2 cut(s)	113, 1089
Psp1406I	AACGTT	1 cut(s)	51
PspEI	GGTNACC	1 cut(s)	245
PspPI	GGNCC	3 cut(s)	28, 326, 1043
PsuI	RGATCY	2 cut(s)	591, 767
SaqAI	TTAA	4 cut(s)	98, 113, 714, 1089
SatI	GCNGC	5 cut(s)	545, 642, 683, 812, 867
Sau3AI	GATC	3 cut(s)	470, 591, 767
Sau96I	GGNCC	3 cut(s)	28, 326, 1043
SduI	GDGCHC	1 cut(s)	889
SfaNI	GCATC	4 cut(s)	174, 268, 694, 747
SfuI	TTCGAA	1 cut(s)	108
SinI	GGWCC	2 cut(s)	326, 1043
SmlI	CTYRAG	1 cut(s)	587
SmoI	CTYRAG	1 cut(s)	587
SseBI	AGGCCT	1 cut(s)	270
SsiI	CCGC	5 cut(s)	60, 78, 163, 243, 544
SspI	AATATT	1 cut(s)	492
SspMI	CTAG	2 cut(s)	272, 678
StuI	AGGCCT	1 cut(s)	270
StyI	CCWWGG	3 cut(s)	81, 677, 1069
TaaI	ACNGT	2 cut(s)	199, 351
TaiI	ACGT	3 cut(s)	54, 152, 907
TaqI	TCGA	4 cut(s)	108, 254, 426, 449
TauI	GCSGC	1 cut(s)	547
TfiI	GAWTC	6 cut(s)	434, 532, 851, 877, 917, 1005
Tru1I	TTAA	4 cut(s)	98, 113, 714, 1089
Tru9I	TTAA	4 cut(s)	98, 113, 714, 1089
TscAI	CASTG	3 cut(s)	175, 574, 887
TseFI	GTSAC	4 cut(s)	145, 245, 717, 895
TseI	GCWGC	4 cut(s)	641, 682, 811, 866
Tsp45I	GTSAC	4 cut(s)	145, 245, 717, 895
TspDTI	ATGAA	5 cut(s)	767, 798, 849, 928, 1052
TspRI	CASTG	3 cut(s)	175, 574, 887
VpaK11BI	GGWCC	2 cut(s)	326, 1043
VspI	ATTAAT	2 cut(s)	113, 1089
XapI	RAATTY	5 cut(s)	104, 133, 440, 728, 774
XceI	RCATGY	1 cut(s)	183
XmaJI	CCTAGG	1 cut(s)	677
XmnI	GAANNNNTTC	2 cut(s)	492, 935
XspI	CTAG	2 cut(s)	272, 678

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