Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr16

Orthogroup ID

OG0004762

Physical Location & Seq

Genomic Coordinates Forward (+)

6024005 .. 6027020

Gene Structure 3016 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD16G1086700.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGTCACTAGGTGTCTTTTGTGAAGCCGTGAGCCTTCTGAAGTATGTTTTGAGTATAAGCGACAGAGTAAGTCTTCAACTTCAAGCTTCCTATTCTGAGAATATGCAGATTACTTCTCTGTGTGGAATGATTCAGGAGATCGTGACTACTGGGAAGTTATCCAAGTTGGAGCACTTTGAAACAGATGAAAAGGTACGAACAATCGCCTTATTTGAGGAAATTTGGGGTGTTGGTCCAGCTACGGCATTGAAATTATACGAGAAAGGATACCGCACATTAGATGAATTGAAGAATGAAGATTCATTAACTAAATCACAGAAGTTGGGGTTAAAATATTATGATGATATCAAACAGAGGATCCCACGTCACGAGGCTGAAGAGATGGAGCGCCTTCTACAGAAAGCCGGAGAAGAAGTTTTGCCTGGGGTGGTCATTGTATGTGGAGGCTCGTACAGACGTGGGAAAGCTTCTTGTGGGGATCTCGACGTTGTAATTACGCATCCTGATGGAATGAGTCATAAAGGCTTTTTACCAAAGTATGTAAAGCATTTAAAGGATATGAAGTTCTTAAGGGAGGATTTGGTTTTCAGTACCCATAGTGAGGAGGGTACTGATTCCGGCGTCGACACATATTTTGGGCTTTGCACATATCCTGGACGAGAGCTGCGGCATCGCATAGATCTTAAGGTCTACCCACGGGAAATATATGCGTTTGGAATAATATCTTGGACAGGGAATGACGTATTGAATCGGAGGTTGAGATTACTAGCTGAATCTAAGGGATTCCGGCTTGATGACACAGGGCTGTTTCCAGCCACGCAGGGCTCTTCTGGCGGTAAACGGGGAGCGAGGGCTAGCGCAAGCTTGAAGTTTGATACAGAAAAGGAGGTGTTTGATTTCCTCGGGTTTCCTTGGCTCCAACCGCAAGACAGAAATCTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0000726 GO:0003674 GO:0003824 GO:0003887 GO:0005488 GO:0006139 GO:0006259 GO:0006281 GO:0006284 GO:0006285 GO:0006287 GO:0006289 GO:0006302 GO:0006303 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009987 GO:0010224 GO:0016740 GO:0016772 GO:0016779 GO:0016829 GO:0016835 GO:0018130 GO:0019438 GO:0030145 GO:0033554 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043167 GO:0043169 GO:0043170 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0046483 GO:0046872 GO:0046914 GO:0050896 GO:0051575 GO:0051716 GO:0071704 GO:0071897 GO:0090304 GO:0097510 GO:0140097 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03410 ko03450 map03410 map03450

Pfam Domains

Protein Families

BRCT DNA_pol_B_palm DNA_pol_B_thumb DNA_pol_lambd_f HHH_8 LIM

Protein Analysis

314

Amino Acids

35.36

Weight (kDa)

6.42

Isoelectric Point (pI)

35.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_pol_lambd_f	PF10391	70 - 116	1.7e-20	Fingers domain of DNA polymerase lambda
DNA_pol_B_palm	PF14792	119 - 233	8.9e-30	DNA polymerase beta palm
DNA_pol_B_thumb	PF14791	240 - 312	4.4e-18	DNA polymerase beta thumb

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: OG0004762)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10520 AT1G10520
fragaria_vesca	FvH4_4g35010 FvH4_4g35030
malus_domestica	MD16G1086600.v1.1 MD16G1086700.v1.1
prunus_persica	Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1
pyrus_communis	pycom16g07470
rosa_chinensis	RchiOBHm_Chr4g0444541 RchiOBHm_Chr4g0444551
rosa_laevigata	RLG00000005822 RLG00000005825
rosa_multiflora	Rmu_sc0003839.1_g000005 Rmu_sc0012648.1_g000007
rosa_roxburghii	Rroxscaffold_5G00385000 Rroxscaffold_5G00385010
rosa_rugosa	Rorug04G0353500 Rorug04G0353600 Rorug04G0353700 Rorug04G0353800
rosa_samantha	Rh4AG413800 Rh4BG425500 Rh4CG439900 Rh4CG440200 Rh4DG420800 Rh4DG421100
rosa_wichuraiana	Rw4G035540 Rw4G035550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	2 cut(s)	624, 690
AciI	CCGC	4 cut(s)	271, 667, 834, 923
AclWI	GGATC	3 cut(s)	352, 365, 486
AcsI	RAATTY	1 cut(s)	219
AcuI	CTGAAG	2 cut(s)	59, 396
AcyI	GRCGYC	1 cut(s)	621
AdeI	CACNNNGTG	1 cut(s)	11
AfaI	GTAC	4 cut(s)	195, 452, 592, 610
AfiI	CCNNNNNNNGG	1 cut(s)	601
AflII	CTTAAG	2 cut(s)	568, 683
AgsI	TTSAA	7 cut(s)	77, 83, 179, 250, 289, 748, 868
AjiI	CACGTC	2 cut(s)	365, 458
AjnI	CCWGG	2 cut(s)	421, 652
AjuI	GAANNNNNNNTTGG	2 cut(s)	709, 741
AloI	GAACNNNNNNTCC	2 cut(s)	548, 580
AluBI	AGCT	6 cut(s)	86, 239, 467, 664, 770, 864
AluI	AGCT	6 cut(s)	86, 239, 467, 664, 770, 864
Alw21I	GWGCWC	1 cut(s)	174
AlwI	GGATC	3 cut(s)	352, 365, 486
Ama87I	CYCGRG	1 cut(s)	902
ApeKI	GCWGC	1 cut(s)	664
ApoI	RAATTY	1 cut(s)	219
ArsI	GACNNNNNNTTYG	2 cut(s)	617, 649
AspLEI	GCGC	2 cut(s)	390, 860
AspS9I	GGNCC	1 cut(s)	233
AsuNHI	GCTAGC	1 cut(s)	854
AvaI	CYCGRG	1 cut(s)	902
AvaII	GGWCC	1 cut(s)	233
BamHI	GGATCC	1 cut(s)	357
BanII	GRGCYC	1 cut(s)	827
BauI	CACGAG	1 cut(s)	368
BbsI	GAAGAC	1 cut(s)	65
Bbv12I	GWGCWC	1 cut(s)	174
BbvI	GCAGC	1 cut(s)	651
BccI	CCATC	2 cut(s)	376, 500
BceAI	ACGGC	2 cut(s)	11, 258
BciT130I	CCWGG	2 cut(s)	423, 654
BciVI	GTATCC	1 cut(s)	260
BfaI	CTAG	3 cut(s)	8, 767, 855
BfmI	CTRYAG	1 cut(s)	395
BfoI	RGCGCY	1 cut(s)	391
BfrI	CTTAAG	2 cut(s)	568, 683
BfuI	GTATCC	1 cut(s)	260
BglII	AGATCT	1 cut(s)	679
BisI	GCNGC	2 cut(s)	665, 668
BlsI	GCNGC	2 cut(s)	666, 669
Bme1390I	CCNGG	2 cut(s)	423, 654
Bme18I	GGWCC	1 cut(s)	233
BmeT110I	CYCGRG	1 cut(s)	902
BmgBI	CACGTC	2 cut(s)	365, 458
BmgT120I	GGNCC	1 cut(s)	233
BmiI	GGNNCC	2 cut(s)	359, 917
BmrFI	CCNGG	2 cut(s)	423, 654
BmrI	ACTGGG	1 cut(s)	159
BmsI	GCATC	2 cut(s)	508, 679
BmtI	GCTAGC	1 cut(s)	858
BmuI	ACTGGG	1 cut(s)	159
BpiI	GAAGAC	1 cut(s)	65
BsaHI	GRCGYC	1 cut(s)	621
BsaJI	CCNNGG	4 cut(s)	422, 695, 901, 911
BsaXI	ACNNNNNCTCC	2 cut(s)	399, 429
Bsc4I	CCNNNNNNNGG	1 cut(s)	601
Bse1I	ACTGG	1 cut(s)	154
BseBI	CCWGG	2 cut(s)	423, 654
BseDI	CCNNGG	4 cut(s)	422, 695, 901, 911
BseGI	GGATG	1 cut(s)	499
BseLI	CCNNNNNNNGG	1 cut(s)	601
BseMII	CTCAG	1 cut(s)	87
BseNI	ACTGG	1 cut(s)	154
BseRI	GAGGAG	1 cut(s)	617
BseXI	GCAGC	1 cut(s)	651
BsiHKAI	GWGCWC	1 cut(s)	174
BsiHKCI	CYCGRG	1 cut(s)	902
BsiSI	CCGG	3 cut(s)	405, 618, 787
BslI	CCNNNNNNNGG	1 cut(s)	601
BsoBI	CYCGRG	1 cut(s)	902
Bsp1286I	GDGCHC	2 cut(s)	174, 827
Bsp143I	GATC	4 cut(s)	138, 357, 478, 679
BspACI	CCGC	4 cut(s)	271, 667, 834, 923
BspCNI	CTCAG	1 cut(s)	88
BspLI	GGNNCC	2 cut(s)	359, 917
BspOI	GCTAGC	1 cut(s)	858
BspPI	GGATC	3 cut(s)	352, 365, 486
BspQI	GCTCTTC	1 cut(s)	832
BspTI	CTTAAG	2 cut(s)	568, 683
BsrI	ACTGG	1 cut(s)	154
BssECI	CCNNGG	4 cut(s)	422, 695, 901, 911
BssMI	GATC	4 cut(s)	138, 357, 478, 679
BssNI	GRCGYC	1 cut(s)	621
BssSI	CACGAG	1 cut(s)	368
BssT1I	CCWWGG	1 cut(s)	911
Bst2BI	CACGAG	1 cut(s)	368
Bst2UI	CCWGG	2 cut(s)	423, 654
Bst6I	CTCTTC	2 cut(s)	372, 832
BstACI	GRCGYC	1 cut(s)	621
BstAFI	CTTAAG	2 cut(s)	568, 683
BstC8I	GCNNGC	2 cut(s)	856, 862
BstDEI	CTNAG	2 cut(s)	96, 777
BstDSI	CCRYGG	1 cut(s)	695
BstF5I	GGATG	1 cut(s)	499
BstH2I	RGCGCY	1 cut(s)	391
BstHHI	GCGC	2 cut(s)	390, 860
BstKTI	GATC	4 cut(s)	141, 360, 481, 682
BstMBI	GATC	4 cut(s)	138, 357, 478, 679
BstMWI	GCNNNNNNNGC	2 cut(s)	831, 922
BstNI	CCWGG	2 cut(s)	423, 654
BstSCI	CCNGG	2 cut(s)	421, 652
BstSFI	CTRYAG	1 cut(s)	395
BstV1I	GCAGC	1 cut(s)	651
BstV2I	GAAGAC	1 cut(s)	65
BstX2I	RGATCY	3 cut(s)	357, 478, 679
BstYI	RGATCY	3 cut(s)	357, 478, 679
BsuI	GTATCC	1 cut(s)	260
BtgI	CCRYGG	1 cut(s)	695
BtgZI	GCGATG	1 cut(s)	656
BtrI	CACGTC	2 cut(s)	365, 458
BtsCI	GGATG	1 cut(s)	499
Cac8I	GCNNGC	2 cut(s)	856, 862
CfoI	GCGC	2 cut(s)	390, 860
Cfr13I	GGNCC	1 cut(s)	233
CseI	GACGC	1 cut(s)	610
Csp6I	GTAC	4 cut(s)	194, 451, 591, 609
CviQI	GTAC	4 cut(s)	194, 451, 591, 609
DdeI	CTNAG	2 cut(s)	96, 777
DpnI	GATC	4 cut(s)	140, 359, 480, 681
DpnII	GATC	4 cut(s)	138, 357, 478, 679
DraI	TTTAAA	1 cut(s)	552
DraIII	CACNNNGTG	1 cut(s)	11
Eam1104I	CTCTTC	2 cut(s)	372, 832
EarI	CTCTTC	2 cut(s)	372, 832
Eco130I	CCWWGG	1 cut(s)	911
Eco24I	GRGCYC	1 cut(s)	827
Eco32I	GATATC	1 cut(s)	346
Eco47I	GGWCC	1 cut(s)	233
Eco57I	CTGAAG	2 cut(s)	59, 396
Eco88I	CYCGRG	1 cut(s)	902
EcoRII	CCWGG	2 cut(s)	421, 652
EcoRV	GATATC	1 cut(s)	346
EcoT14I	CCWWGG	1 cut(s)	911
EcoT38I	GRGCYC	1 cut(s)	827
ErhI	CCWWGG	1 cut(s)	911
FblI	GTMKAC	2 cut(s)	624, 690
Fnu4HI	GCNGC	2 cut(s)	665, 668
FokI	GGATG	1 cut(s)	486
FriOI	GRGCYC	1 cut(s)	827
Fsp4HI	GCNGC	2 cut(s)	665, 668
FspBI	CTAG	3 cut(s)	8, 767, 855
GlaI	GCGC	2 cut(s)	389, 859
GluI	GCNGC	2 cut(s)	665, 668
HaeII	RGCGCY	1 cut(s)	391
HapII	CCGG	3 cut(s)	405, 618, 787
HgaI	GACGC	1 cut(s)	610
HhaI	GCGC	2 cut(s)	390, 860
Hin1I	GRCGYC	1 cut(s)	621
Hin6I	GCGC	2 cut(s)	388, 858
HinP1I	GCGC	2 cut(s)	388, 858
HincII	GTYRAC	1 cut(s)	625
HindII	GTYRAC	1 cut(s)	625
HindIII	AAGCTT	3 cut(s)	84, 465, 862
HinfI	GANTC	7 cut(s)	130, 299, 514, 614, 748, 773, 783
HpaII	CCGG	3 cut(s)	405, 618, 787
Hpy166II	GTNNAC	3 cut(s)	625, 691, 839
Hpy188I	TCNGA	3 cut(s)	39, 97, 753
Hpy188III	TCNNGA	5 cut(s)	134, 142, 368, 482, 503
Hpy8I	GTNNAC	3 cut(s)	625, 691, 839
Hpy99I	CGWCG	2 cut(s)	488, 626
HpyAV	CCTTC	2 cut(s)	44, 401
HpyCH4IV	ACGT	4 cut(s)	364, 457, 486, 741
HpyCH4V	TGCA	2 cut(s)	106, 645
HpyF10VI	GCNNNNNNNGC	2 cut(s)	831, 922
HpyF3I	CTNAG	2 cut(s)	96, 777
HpySE526I	ACGT	4 cut(s)	364, 457, 486, 741
Hsp92I	GRCGYC	1 cut(s)	621
HspAI	GCGC	2 cut(s)	388, 858
Kzo9I	GATC	4 cut(s)	138, 357, 478, 679
LguI	GCTCTTC	1 cut(s)	832
LmnI	GCTCC	4 cut(s)	169, 385, 845, 921
Lsp1109I	GCAGC	1 cut(s)	651
LweI	GCATC	2 cut(s)	508, 679
MaeI	CTAG	3 cut(s)	8, 767, 855
MaeII	ACGT	4 cut(s)	364, 457, 486, 741
MaeIII	GTNAC	3 cut(s)	3, 142, 365
MalI	GATC	4 cut(s)	140, 359, 480, 681
MboI	GATC	4 cut(s)	138, 357, 478, 679
MboII	GAAGA	6 cut(s)	65, 301, 308, 389, 422, 819
MflI	RGATCY	3 cut(s)	357, 478, 679
MhlI	GDGCHC	2 cut(s)	174, 827
MluCI	AATT	4 cut(s)	219, 251, 284, 492
MlyI	GAGTC	1 cut(s)	523
MmeI	TCCRAC	1 cut(s)	147
MseI	TTAA	5 cut(s)	305, 329, 551, 569, 684
MslI	CAYNNNNRTG	1 cut(s)	504
MspCI	CTTAAG	2 cut(s)	568, 683
MspI	CCGG	3 cut(s)	405, 618, 787
MspR9I	CCNGG	2 cut(s)	423, 654
MvaI	CCWGG	2 cut(s)	423, 654
MwoI	GCNNNNNNNGC	2 cut(s)	831, 922
NdeII	GATC	4 cut(s)	138, 357, 478, 679
NheI	GCTAGC	1 cut(s)	854
NlaIV	GGNNCC	2 cut(s)	359, 917
NmuCI	GTSAC	3 cut(s)	3, 142, 365
PciSI	GCTCTTC	1 cut(s)	832
PfeI	GAWTC	6 cut(s)	130, 299, 614, 748, 773, 783
PfoI	TCCNGGA	1 cut(s)	652
PkrI	GCNGC	2 cut(s)	666, 669
PleI	GAGTC	1 cut(s)	522
PpsI	GAGTC	1 cut(s)	522
Psp6I	CCWGG	2 cut(s)	421, 652
PspGI	CCWGG	2 cut(s)	421, 652
PspN4I	GGNNCC	2 cut(s)	359, 917
PspPI	GGNCC	1 cut(s)	233
PsuI	RGATCY	3 cut(s)	357, 478, 679
RsaI	GTAC	4 cut(s)	195, 452, 592, 610
RsaNI	GTAC	4 cut(s)	194, 451, 591, 609
RseI	CAYNNNNRTG	1 cut(s)	504
SalI	GTCGAC	1 cut(s)	623
SapI	GCTCTTC	1 cut(s)	832
SaqAI	TTAA	5 cut(s)	305, 329, 551, 569, 684
SatI	GCNGC	2 cut(s)	665, 668
Sau3AI	GATC	4 cut(s)	138, 357, 478, 679
Sau96I	GGNCC	1 cut(s)	233
SchI	GAGTC	1 cut(s)	523
ScrFI	CCNGG	2 cut(s)	423, 654
SduI	GDGCHC	2 cut(s)	174, 827
SfaNI	GCATC	2 cut(s)	508, 679
SfcI	CTRYAG	1 cut(s)	395
SinI	GGWCC	1 cut(s)	233
SmiMI	CAYNNNNRTG	1 cut(s)	504
SmlI	CTYRAG	2 cut(s)	568, 683
SmoI	CTYRAG	2 cut(s)	568, 683
Sse9I	AATT	4 cut(s)	219, 251, 284, 492
SsiI	CCGC	4 cut(s)	271, 667, 834, 923
SspI	AATATT	1 cut(s)	335
SspMI	CTAG	3 cut(s)	8, 767, 855
StyD4I	CCNGG	2 cut(s)	421, 652
StyI	CCWWGG	1 cut(s)	911
TaiI	ACGT	4 cut(s)	367, 460, 489, 744
TaqI	TCGA	2 cut(s)	483, 624
TasI	AATT	4 cut(s)	219, 251, 284, 492
TauI	GCSGC	1 cut(s)	670
TfiI	GAWTC	6 cut(s)	130, 299, 614, 748, 773, 783
Tru1I	TTAA	5 cut(s)	305, 329, 551, 569, 684
Tru9I	TTAA	5 cut(s)	305, 329, 551, 569, 684
TseFI	GTSAC	3 cut(s)	3, 142, 365
TseI	GCWGC	1 cut(s)	664
Tsp45I	GTSAC	3 cut(s)	3, 142, 365
TspDTI	ATGAA	5 cut(s)	201, 291, 297, 309, 575
Vha464I	CTTAAG	2 cut(s)	568, 683
VpaK11BI	GGWCC	1 cut(s)	233
XapI	RAATTY	1 cut(s)	219
XmiI	GTMKAC	2 cut(s)	624, 690
XspI	CTAG	3 cut(s)	8, 767, 855

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