Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr13

Orthogroup ID

OG0002620

Physical Location & Seq

Genomic Coordinates Forward (+)

19074938 .. 19077328

Gene Structure 2391 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD13G1208000.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 780 bp

ATGGAGGCCCCCACCCCCAAACACACGTGCCTAAAGCTCGATCTCCAAGAATCCCAGCAACCAATCTTCGTCAAGGGCACGTGGTTCCCCTCCCGCTTCGAACTCTCCATCACCGACGGCCGCAACGCCTGGATCTGCTCCGCCTCCGAAGACCAGGTCAGCGACCGTGCCGCTCAGTGGGACCAGCCGGTCTCCGAGTACGTGGCGCTGGCCGAGCGCTACTTAGGGTTTCAGCACCCTGACTCCGTATACGGGTTCGCCGACGCCGGCGACGGCTACAAAAGACTTTCATGGACGTTTGAGAAGGAAGGGACGAAGCTCGAATGGCGGTGGAAATGTCAGCCGTCGCCAAACAGTAAGCAAACCACGGCGGCGGTGTTGGATTTTCTCATGGATGCAAATGTTGGGCTAAGTGAAGAAGTTGTGAGAAAAACTCAATCATTTGAGAGGTTGAAAGTGGAAGCTGAGAAGTGTCTAGCACAGAGTGAGAAGATTACCAATGAGAAGATAGAATTTGAGTCCGCTATTTATGCAAAGTTTCTTGGCGTCTTGAATTCAAAGAAAGCTAAACTAAGAGAGCTCCGAGATAAGCTTTCAAACAAAGAGGTTGCTGGGAAACTGCCAGAAGAAGAGGAAGCAAGTTCAGAACAAACTGAACCTTATGTCAGTGGCGATGACAAAAGCGAGGAAGAATTTTTGAAAGATTATCCAGCTACCTCCAAGGATGTTCCAACCATTAGGTCTCGAGGTAGAGGTCGAAAGAGGGGAACGCACAAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000726 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006281 GO:0006302 GO:0006303 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009987 GO:0033554 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044464 GO:0046483 GO:0050896 GO:0051716 GO:0071704 GO:0090304 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03450 map03450

Pfam Domains

Protein Families

XRCC4

Protein Analysis

260

Amino Acids

29.47

Weight (kDa)

5.67

Isoelectric Point (pI)

49.66

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XLF	PF09302	13 - 114	2.5e-06	XLF N-terminal domain
XRCC4	PF06632	21 - 116	2.6e-27	XRCC4 N-terminal domain
XRCC4_CC	PF21924	146 - 194	2e-06	XRCC4 coiled-coil

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: OG0002620)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G61410 AT3G23100 AT3G23100
fragaria_vesca	FvH4_2g07190 FvH4_2g07190
malus_domestica	MD13G1208000.v1.1
prunus_persica	Prupe.1G031500_v2.0.a1 Prupe.1G031500_v2.0.a1 Prupe.1G031500_v2.0.a1
pyrus_communis	pycom13g18010
rosa_chinensis	RchiOBHm_Chr1g0323991
rosa_laevigata	RLG00000030236
rosa_multiflora	Rmu_sc0001861.1_g000102 Rmu_sc0002529.1_g000031 Rmu_sc0003452.1_g000009 Rmu_sc0005177.1_g000001 Rmu_sc0006175.1_g000019
rosa_roxburghii	Rroxscaffold_160G00433790 Rroxscaffold_2G00104220 Rroxscaffold_4G00325990 Rroxscaffold_4G00328010 Rroxscaffold_4G00328020
rosa_rugosa	Rorug01G0031900 Rorug01G0041300 Rorug03G0294600
rosa_samantha	Rh1AG043800 Rh1AG059000 Rh1BG041300 Rh1CG046300 Rh1CG061100 Rh1DG051000 Rh1DG065200 Rh4BG282000 Rh5AG329500 Rh7AG348000 Rh7CG365400 Rh7CG365500
rosa_wichuraiana	Rw1G003850 Rw1G005060 Rw4G020960

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	188
AccBSI	CCGCTC	1 cut(s)	173
AccI	GTMKAC	1 cut(s)	249
AciI	CCGC	8 cut(s)	94, 121, 141, 171, 328, 371, 374, 522
AclWI	GGATC	1 cut(s)	140
AcoI	YGGCCR	2 cut(s)	118, 210
AcsI	RAATTY	3 cut(s)	512, 553, 692
AcvI	CACGTG	2 cut(s)	27, 81
AcyI	GRCGYC	2 cut(s)	264, 546
AdeI	CACNNNGTG	1 cut(s)	485
AfaI	GTAC	1 cut(s)	200
AfeI	AGCGCT	1 cut(s)	218
AfiI	CCNNNNNNNGG	2 cut(s)	177, 252
AflIII	ACRYGT	1 cut(s)	24
AgsI	TTSAA	5 cut(s)	454, 553, 558, 597, 700
AjnI	CCWGG	2 cut(s)	128, 153
AluBI	AGCT	7 cut(s)	37, 319, 464, 566, 580, 592, 713
AluI	AGCT	7 cut(s)	37, 319, 464, 566, 580, 592, 713
Alw21I	GWGCWC	1 cut(s)	582
Alw26I	GTCTC	2 cut(s)	196, 747
AlwI	GGATC	1 cut(s)	140
Ama87I	CYCGRG	1 cut(s)	744
Aor51HI	AGCGCT	1 cut(s)	218
AoxI	GGCC	3 cut(s)	6, 118, 210
ApoI	RAATTY	3 cut(s)	512, 553, 692
ArsI	GACNNNNNNTTYG	2 cut(s)	141, 173
AspLEI	GCGC	2 cut(s)	208, 219
AspS9I	GGNCC	2 cut(s)	7, 181
AsuHPI	GGTGA	1 cut(s)	103
AsuII	TTCGAA	1 cut(s)	99
AvaI	CYCGRG	1 cut(s)	744
AvaII	GGWCC	1 cut(s)	181
BaeGI	GKGCMC	1 cut(s)	80
BanII	GRGCYC	1 cut(s)	582
BbrPI	CACGTG	2 cut(s)	27, 81
BbsI	GAAGAC	1 cut(s)	156
Bbv12I	GWGCWC	1 cut(s)	582
BccI	CCATC	1 cut(s)	116
BceAI	ACGGC	4 cut(s)	133, 289, 328, 384
BciT130I	CCWGG	2 cut(s)	130, 155
BcoDI	GTCTC	2 cut(s)	196, 747
BfaI	CTAG	1 cut(s)	476
BfoI	RGCGCY	2 cut(s)	209, 220
BisI	GCNGC	3 cut(s)	121, 171, 372
BlsI	GCNGC	3 cut(s)	122, 172, 373
Bme1390I	CCNGG	2 cut(s)	130, 155
Bme18I	GGWCC	1 cut(s)	181
BmeT110I	CYCGRG	1 cut(s)	744
BmgT120I	GGNCC	2 cut(s)	7, 181
BmiI	GGNNCC	3 cut(s)	9, 86, 182
BmrFI	CCNGG	2 cut(s)	130, 155
BmsI	GCATC	1 cut(s)	385
BpiI	GAAGAC	1 cut(s)	156
BplI	GAGNNNNNCTC	2 cut(s)	418, 450
Bpu14I	TTCGAA	1 cut(s)	99
BsaAI	YACGTR	3 cut(s)	27, 81, 202
BsaHI	GRCGYC	2 cut(s)	264, 546
BsaI	GGTCTC	2 cut(s)	196, 747
BsaJI	CCNNGG	2 cut(s)	366, 720
BsaXI	ACNNNNNCTCC	2 cut(s)	227, 257
Bsc4I	CCNNNNNNNGG	2 cut(s)	177, 252
Bse118I	RCCGGY	2 cut(s)	187, 266
BseBI	CCWGG	2 cut(s)	130, 155
BseDI	CCNNGG	2 cut(s)	366, 720
BseGI	GGATG	2 cut(s)	400, 730
BseLI	CCNNNNNNNGG	2 cut(s)	177, 252
BseMII	CTCAG	2 cut(s)	188, 456
BseSI	GKGCMC	1 cut(s)	80
BseX3I	CGGCCG	1 cut(s)	118
BseYI	CCCAGC	2 cut(s)	54, 611
Bsh1285I	CGRYCG	2 cut(s)	121, 166
BshFI	GGCC	3 cut(s)	8, 120, 212
BsiEI	CGRYCG	2 cut(s)	121, 166
BsiHKAI	GWGCWC	1 cut(s)	582
BsiHKCI	CYCGRG	1 cut(s)	744
BsiSI	CCGG	2 cut(s)	188, 267
BslFI	GGGAC	2 cut(s)	194, 325
BslI	CCNNNNNNNGG	2 cut(s)	177, 252
BsmAI	GTCTC	2 cut(s)	196, 747
BsmFI	GGGAC	2 cut(s)	194, 325
BsnI	GGCC	3 cut(s)	8, 120, 212
Bso31I	GGTCTC	2 cut(s)	196, 747
BsoBI	CYCGRG	1 cut(s)	744
Bsp119I	TTCGAA	1 cut(s)	99
Bsp1286I	GDGCHC	2 cut(s)	80, 582
Bsp143I	GATC	2 cut(s)	40, 132
BspACI	CCGC	8 cut(s)	94, 121, 141, 171, 328, 371, 374, 522
BspANI	GGCC	3 cut(s)	8, 120, 212
BspCNI	CTCAG	2 cut(s)	187, 457
BspLI	GGNNCC	3 cut(s)	9, 86, 182
BspPI	GGATC	1 cut(s)	140
BspT104I	TTCGAA	1 cut(s)	99
BspTNI	GGTCTC	2 cut(s)	196, 747
BsrBI	CCGCTC	1 cut(s)	173
BsrFI	RCCGGY	2 cut(s)	187, 266
BssAI	RCCGGY	2 cut(s)	187, 266
BssECI	CCNNGG	2 cut(s)	366, 720
BssMI	GATC	2 cut(s)	40, 132
BssNAI	GTATAC	1 cut(s)	250
BssNI	GRCGYC	2 cut(s)	264, 546
BssT1I	CCWWGG	1 cut(s)	720
Bst1107I	GTATAC	1 cut(s)	250
Bst2UI	CCWGG	2 cut(s)	130, 155
Bst4CI	ACNGT	2 cut(s)	167, 356
Bst6I	CTCTTC	1 cut(s)	624
BstACI	GRCGYC	2 cut(s)	264, 546
BstBAI	YACGTR	3 cut(s)	27, 81, 202
BstBI	TTCGAA	1 cut(s)	99
BstC8I	GCNNGC	2 cut(s)	210, 268
BstDEI	CTNAG	5 cut(s)	174, 223, 410, 465, 572
BstDSI	CCRYGG	1 cut(s)	366
BstF5I	GGATG	2 cut(s)	400, 730
BstH2I	RGCGCY	2 cut(s)	209, 220
BstHHI	GCGC	2 cut(s)	208, 219
BstKTI	GATC	2 cut(s)	43, 135
BstMAI	GTCTC	2 cut(s)	196, 747
BstMBI	GATC	2 cut(s)	40, 132
BstMCI	CGRYCG	2 cut(s)	121, 166
BstMWI	GCNNNNNNNGC	3 cut(s)	214, 325, 530
BstNI	CCWGG	2 cut(s)	130, 155
BstSCI	CCNGG	2 cut(s)	128, 153
BstSLI	GKGCMC	1 cut(s)	80
BstV2I	GAAGAC	1 cut(s)	156
BstX2I	RGATCY	1 cut(s)	132
BstYI	RGATCY	1 cut(s)	132
BstZ17I	GTATAC	1 cut(s)	250
BstZI	CGGCCG	1 cut(s)	118
BsuRI	GGCC	3 cut(s)	8, 120, 212
BtgI	CCRYGG	1 cut(s)	366
BtgZI	GCGATG	1 cut(s)	687
BtsCI	GGATG	2 cut(s)	400, 730
BtsIMutI	CAGTG	2 cut(s)	182, 673
Cac8I	GCNNGC	2 cut(s)	210, 268
CfoI	GCGC	2 cut(s)	208, 219
Cfr10I	RCCGGY	2 cut(s)	187, 266
Cfr13I	GGNCC	2 cut(s)	7, 181
CseI	GACGC	2 cut(s)	272, 535
CsiI	ACCWGGT	1 cut(s)	153
Csp6I	GTAC	1 cut(s)	199
CviAII	CATG	2 cut(s)	291, 391
CviQI	GTAC	1 cut(s)	199
DdeI	CTNAG	5 cut(s)	174, 223, 410, 465, 572
DpnI	GATC	2 cut(s)	42, 134
DpnII	GATC	2 cut(s)	40, 132
DraIII	CACNNNGTG	1 cut(s)	485
DrdI	GACNNNNNNGTC	1 cut(s)	188
DseDI	GACNNNNNNGTC	1 cut(s)	188
EaeI	YGGCCR	2 cut(s)	118, 210
EagI	CGGCCG	1 cut(s)	118
Eam1104I	CTCTTC	1 cut(s)	624
EarI	CTCTTC	1 cut(s)	624
EciI	GGCGGA	1 cut(s)	130
Ecl136II	GAGCTC	1 cut(s)	580
EclXI	CGGCCG	1 cut(s)	118
Eco130I	CCWWGG	1 cut(s)	720
Eco24I	GRGCYC	1 cut(s)	582
Eco31I	GGTCTC	2 cut(s)	196, 747
Eco47I	GGWCC	1 cut(s)	181
Eco47III	AGCGCT	1 cut(s)	218
Eco52I	CGGCCG	1 cut(s)	118
Eco53kI	GAGCTC	1 cut(s)	580
Eco72I	CACGTG	2 cut(s)	27, 81
Eco88I	CYCGRG	1 cut(s)	744
EcoICRI	GAGCTC	1 cut(s)	580
EcoO109I	RGGNCCY	1 cut(s)	7
EcoRI	GAATTC	1 cut(s)	553
EcoRII	CCWGG	2 cut(s)	128, 153
EcoT14I	CCWWGG	1 cut(s)	720
EcoT38I	GRGCYC	1 cut(s)	582
ErhI	CCWWGG	1 cut(s)	720
FaeI	CATG	2 cut(s)	294, 394
FaiI	YATR	5 cut(s)	250, 292, 392, 531, 663
FaqI	GGGAC	2 cut(s)	194, 325
FatI	CATG	2 cut(s)	290, 390
FauI	CCCGC	1 cut(s)	101
FblI	GTMKAC	1 cut(s)	249
Fnu4HI	GCNGC	3 cut(s)	121, 171, 372
FokI	GGATG	2 cut(s)	407, 737
FriOI	GRGCYC	1 cut(s)	582
Fsp4HI	GCNGC	3 cut(s)	121, 171, 372
FspBI	CTAG	1 cut(s)	476
GlaI	GCGC	2 cut(s)	207, 218
GluI	GCNGC	3 cut(s)	121, 171, 372
GsaI	CCCAGC	2 cut(s)	58, 615
HaeII	RGCGCY	2 cut(s)	209, 220
HaeIII	GGCC	3 cut(s)	8, 120, 212
HapII	CCGG	2 cut(s)	188, 267
HgaI	GACGC	2 cut(s)	272, 535
HhaI	GCGC	2 cut(s)	208, 219
Hin1I	GRCGYC	2 cut(s)	264, 546
Hin1II	CATG	2 cut(s)	294, 394
Hin6I	GCGC	2 cut(s)	206, 217
HinP1I	GCGC	2 cut(s)	206, 217
HindIII	AAGCTT	1 cut(s)	590
HinfI	GANTC	3 cut(s)	50, 242, 518
HpaII	CCGG	2 cut(s)	188, 267
HphI	GGTGA	1 cut(s)	103
Hpy166II	GTNNAC	1 cut(s)	250
Hpy188I	TCNGA	4 cut(s)	148, 196, 584, 646
Hpy188III	TCNNGA	2 cut(s)	550, 744
Hpy8I	GTNNAC	1 cut(s)	250
Hpy99I	CGWCG	4 cut(s)	119, 266, 275, 349
HpyAV	CCTTC	2 cut(s)	298, 302
HpyCH4III	ACNGT	2 cut(s)	167, 356
HpyCH4IV	ACGT	4 cut(s)	26, 80, 201, 296
HpyCH4V	TGCA	2 cut(s)	398, 533
HpyF10VI	GCNNNNNNNGC	3 cut(s)	214, 325, 530
HpyF3I	CTNAG	5 cut(s)	174, 223, 410, 465, 572
HpySE526I	ACGT	4 cut(s)	26, 80, 201, 296
Hsp92I	GRCGYC	2 cut(s)	264, 546
Hsp92II	CATG	2 cut(s)	294, 394
HspAI	GCGC	2 cut(s)	206, 217
KroI	GCCGGC	1 cut(s)	266
KroNI	GCCGGC	1 cut(s)	268
Kzo9I	GATC	2 cut(s)	40, 132
LmnI	GCTCC	2 cut(s)	143, 585
LweI	GCATC	1 cut(s)	385
MabI	ACCWGGT	1 cut(s)	153
MaeI	CTAG	1 cut(s)	476
MaeII	ACGT	4 cut(s)	26, 80, 201, 296
MalI	GATC	2 cut(s)	42, 134
MbiI	CCGCTC	1 cut(s)	173
MboI	GATC	2 cut(s)	40, 132
MboII	GAAGA	8 cut(s)	58, 161, 428, 502, 517, 638, 641, 701
MflI	RGATCY	1 cut(s)	132
MhlI	GDGCHC	2 cut(s)	80, 582
MluCI	AATT	3 cut(s)	512, 553, 692
MlyI	GAGTC	2 cut(s)	236, 527
MmeI	TCCRAC	2 cut(s)	360, 755
MreI	CGCCGGCG	1 cut(s)	266
MroNI	GCCGGC	1 cut(s)	266
MspI	CCGG	2 cut(s)	188, 267
MspR9I	CCNGG	2 cut(s)	130, 155
MvaI	CCWGG	2 cut(s)	130, 155
MwoI	GCNNNNNNNGC	3 cut(s)	214, 325, 530
NaeI	GCCGGC	1 cut(s)	268
NdeII	GATC	2 cut(s)	40, 132
NgoMIV	GCCGGC	1 cut(s)	266
NlaIII	CATG	2 cut(s)	294, 394
NlaIV	GGNNCC	3 cut(s)	9, 86, 182
NmeAIII	GCCGAG	1 cut(s)	238
NspV	TTCGAA	1 cut(s)	99
PaeR7I	CTCGAG	1 cut(s)	744
PcsI	WCGNNNNNNNCGW	1 cut(s)	258
PdiI	GCCGGC	1 cut(s)	268
PfeI	GAWTC	1 cut(s)	50
PflFI	GACNNNGTC	1 cut(s)	155
PkrI	GCNGC	3 cut(s)	122, 172, 373
PleI	GAGTC	2 cut(s)	236, 526
PmaCI	CACGTG	2 cut(s)	27, 81
PmlI	CACGTG	2 cut(s)	27, 81
PpsI	GAGTC	2 cut(s)	236, 526
Ppu21I	YACGTR	3 cut(s)	27, 81, 202
Psp124BI	GAGCTC	1 cut(s)	582
Psp6I	CCWGG	2 cut(s)	128, 153
PspCI	CACGTG	2 cut(s)	27, 81
PspFI	CCCAGC	2 cut(s)	54, 611
PspGI	CCWGG	2 cut(s)	128, 153
PspN4I	GGNNCC	3 cut(s)	9, 86, 182
PspPI	GGNCC	2 cut(s)	7, 181
PsuI	RGATCY	1 cut(s)	132
PsyI	GACNNNGTC	1 cut(s)	155
RsaI	GTAC	1 cut(s)	200
RsaNI	GTAC	1 cut(s)	199
SacI	GAGCTC	1 cut(s)	582
SatI	GCNGC	3 cut(s)	121, 171, 372
Sau3AI	GATC	2 cut(s)	40, 132
Sau96I	GGNCC	2 cut(s)	7, 181
SchI	GAGTC	2 cut(s)	236, 527
ScrFI	CCNGG	2 cut(s)	130, 155
SduI	GDGCHC	2 cut(s)	80, 582
SexAI	ACCWGGT	1 cut(s)	153
SfaNI	GCATC	1 cut(s)	385
Sfr274I	CTCGAG	1 cut(s)	744
SfuI	TTCGAA	1 cut(s)	99
SgrAI	CRCCGGYG	1 cut(s)	266
SinI	GGWCC	1 cut(s)	181
SlaI	CTCGAG	1 cut(s)	744
SmlI	CTYRAG	1 cut(s)	744
SmoI	CTYRAG	1 cut(s)	744
Sse9I	AATT	3 cut(s)	512, 553, 692
SsiI	CCGC	8 cut(s)	94, 121, 141, 171, 328, 371, 374, 522
SspMI	CTAG	1 cut(s)	476
SstI	GAGCTC	1 cut(s)	582
StyD4I	CCNGG	2 cut(s)	128, 153
StyI	CCWWGG	1 cut(s)	720
TaaI	ACNGT	2 cut(s)	167, 356
TaiI	ACGT	4 cut(s)	29, 83, 204, 299
TaqI	TCGA	5 cut(s)	39, 99, 321, 745, 757
TasI	AATT	3 cut(s)	512, 553, 692
TauI	GCSGC	3 cut(s)	123, 173, 374
TfiI	GAWTC	1 cut(s)	50
TscAI	CASTG	2 cut(s)	182, 673
TspDTI	ATGAA	1 cut(s)	279
TspGWI	ACGGA	1 cut(s)	235
TspRI	CASTG	2 cut(s)	182, 673
Tth111I	GACNNNGTC	1 cut(s)	155
VpaK11BI	GGWCC	1 cut(s)	181
XapI	RAATTY	3 cut(s)	512, 553, 692
XhoI	CTCGAG	1 cut(s)	744
XmiI	GTMKAC	1 cut(s)	249
XspI	CTAG	1 cut(s)	476

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