Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr06

Orthogroup ID

OG0005779

Physical Location & Seq

Genomic Coordinates Forward (+)

24396779 .. 24402061

Gene Structure 5283 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD06G1105400.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1332 bp

ATGATGATCGACGAATATGAACAGAAACAAGGGAGTGTTGTTCCTGAAGGATTTAACTCCCATTATCTCAAAGTTTACTATGGAAAACTCTTTCCATATGCAGATATTTTTAAATGGATGTCCTATGGAAATGATGGGAAGCATCCCGCGTGCGACCAGTCCTACTTTAGCCGGAGAGAGTTCTCTTTCACACTGGACAATGATGTCTATCTGCGGTTCCAATCCTTCAACTCTGCGTCTGAGCTTGAAAGCTCTGTCAAAGAAAAGTGTCCGGTCAAAATAGATATTGGACCTGTGTATAGTGTTGATCCTTCAAAGAGGCACGCATATGCTCAGAGTGGCGATAATGTTTTCACCCCAGTGGAGAGGGAGCTGATCTTTGATATAGATATGTCTGACTACGATGATGTGAGGTACTGCTGTTCAGGAGCTGATGTTTGCTTGGAGTGCTGGCCACTTATGACAATTGCTATCAAAGTGATTGATACAGCCCTTAGAGATGACTTTGGTTTCAGTCACATTCTCTGGGTATATAGTGGTAGACGTGGCGTTCATTGCTGGGTTTGTGATGGGAAAGCAAGAAGGCTGACAAATGAACAGAGGGCAGCTATTGCTGATTATTTTCGTGTCTATAAGGGCAATGAAAACAGTCAGAAAAAGGTTTCTTTTACTGGTCATGCTCTCCATCCATTCCTTTCGAGAGCTTATACTGGAGTTCTTACAGAGTTCTTTAAGAAATTGCTTTTGAGTCAAAAGATATTTTCAACCGAGGAAAGATATGAAAAGATCTTAGATATGATTCCCGATCCTGATCAATCTATTACTTCTGAGCTTCGTGGAAGGTGGCAAGAGAAGAGACAAACCTCCAGCTCAAAAGAAGACATTAATGTTGTTAGATGGGAGCAGCTAAAAACTATGCTGCAATCTGGAAAACCCAAGGTGCAAGGATTGCGTAGGTGCGTTGAAGAGATTGTGTTCTCTTTTACCTACCCTAGGCTGGATATGGAGGTTTCAAAACACATGAACCATTTGCTAAAGGCACCATTCTGTGTACACCCAAAAACAGGTCGTGTTTGTGTTCCAATTGATCCAAATCATTGTGAGGACTTTGATCCTACTGCGGTACCAACCCTTTCCACTCTTTTAGAACAACTCAACATTGGAGGCTTGAGAGCAGAAGGTGATAATGAATGGGACAGAACGGCACTCGGACAATCAATCAGGTTTTTCAGATCATCGTTTCTGCAGCCTCTGCTAAAATCTTGCAAGGAGGAGATGGAAAGCTCCTACACTGCCAGGCTGCAGCAGTCGAATAACTCCTTTAATTGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000228 GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003824 GO:0003896 GO:0003899 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005658 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006269 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0016070 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019438 GO:0030880 GO:0030894 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0032993 GO:0034062 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097159 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03030 map00230 map00240 map01100 map03030

Pfam Domains

Protein Families

DNA_primase_S

Protein Analysis

444

Amino Acids

51.25

Weight (kDa)

6.29

Isoelectric Point (pI)

53.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_S	PF01896	127 - 363	4.7e-53	DNA primase small subunit

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: OG0005779)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G41880
fragaria_vesca	FvH4_5g04460
malus_domestica	MD06G1105400.v1.1
prunus_persica	Prupe.5G117700_v2.0.a1
pyrus_communis	pycom06g09970
rosa_chinensis	RchiOBHm_Chr7g0195041
rosa_laevigata	RLG00000004150 RLG00000008501 RLG00000015305
rosa_multiflora	Rmu_sc0002246.1_g000003
rosa_roxburghii	Rroxscaffold_3G00260810
rosa_rugosa	Rorug07G0020100 Rorug07G0020200
rosa_samantha	Rh6BG025100 Rh6BG025600 Rh6BG025700 Rh6BG026500 Rh6BG026600 Rh6CG024600 Rh6DG024100 Rh6DG024400 Rh7AG147700 Rh7BG148300 Rh7CG152000
rosa_wichuraiana	Rw2G021680 Rw5G042100 Rw6G002490 Rw7G012610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	203
Acc65I	GGTACC	1 cut(s)	1123
AccB1I	GGYRCC	2 cut(s)	1039, 1123
AccI	GTMKAC	1 cut(s)	541
AccII	CGCG	1 cut(s)	149
AciI	CCGC	3 cut(s)	147, 214, 1121
AclWI	GGATC	4 cut(s)	302, 800, 1082, 1106
AcoI	YGGCCR	1 cut(s)	452
AcuI	CTGAAG	1 cut(s)	66
AfaI	GTAC	3 cut(s)	416, 1053, 1125
AfiI	CCNNNNNNNGG	4 cut(s)	993, 997, 1064, 1326
AgsI	TTSAA	6 cut(s)	229, 248, 315, 765, 965, 1014
AjiI	CACGTC	1 cut(s)	545
AjnI	CCWGG	1 cut(s)	1295
AleI	CACNNNNGTG	1 cut(s)	359
Alw26I	GTCTC	1 cut(s)	850
AlwI	GGATC	4 cut(s)	302, 800, 1082, 1106
AlwNI	CAGNNNCTG	2 cut(s)	431, 1252
AoxI	GGCC	1 cut(s)	452
ApeKI	GCWGC	6 cut(s)	605, 904, 919, 1246, 1300, 1303
AseI	ATTAAT	1 cut(s)	885
Asp718I	GGTACC	1 cut(s)	1123
AspA2I	CCTAGG	1 cut(s)	992
AspS9I	GGNCC	1 cut(s)	290
AsuHPI	GGTGA	2 cut(s)	346, 1193
AvaII	GGWCC	1 cut(s)	290
AvrII	CCTAGG	1 cut(s)	992
BaeI	ACNNNNGTAYC	4 cut(s)	406, 439, 1107, 1140
BalI	TGGCCA	1 cut(s)	454
BanI	GGYRCC	2 cut(s)	1039, 1123
BbsI	GAAGAC	1 cut(s)	885
BbvI	GCAGC	6 cut(s)	617, 906, 916, 1258, 1287, 1315
BccI	CCATC	5 cut(s)	128, 563, 693, 891, 1270
BceAI	ACGGC	1 cut(s)	1218
BciT130I	CCWGG	1 cut(s)	1297
BclI	TGATCA	1 cut(s)	811
BcoDI	GTCTC	1 cut(s)	850
BfaI	CTAG	1 cut(s)	993
BfmI	CTRYAG	2 cut(s)	1244, 1301
BglII	AGATCT	1 cut(s)	786
BisI	GCNGC	6 cut(s)	606, 905, 920, 1247, 1301, 1304
BlnI	CCTAGG	1 cut(s)	992
BlsI	GCNGC	6 cut(s)	607, 906, 921, 1248, 1302, 1305
Bme1390I	CCNGG	1 cut(s)	1297
Bme18I	GGWCC	1 cut(s)	290
BmgBI	CACGTC	1 cut(s)	545
BmgT120I	GGNCC	1 cut(s)	290
BmiI	GGNNCC	3 cut(s)	218, 1041, 1125
BmrFI	CCNGG	1 cut(s)	1297
BmrI	ACTGGG	1 cut(s)	353
BmsI	GCATC	1 cut(s)	151
BmuI	ACTGGG	1 cut(s)	353
BpiI	GAAGAC	1 cut(s)	885
BpmI	CTGGAG	2 cut(s)	732, 850
BpuEI	CTTGAG	1 cut(s)	1189
BsaBI	GATNNNNATC	3 cut(s)	207, 810, 1092
BsaJI	CCNNGG	3 cut(s)	768, 936, 992
BsaWI	WCCGGW	1 cut(s)	271
BsaXI	ACNNNNNCTCC	2 cut(s)	420, 450
Bsc4I	CCNNNNNNNGG	4 cut(s)	993, 997, 1064, 1326
Bse1I	ACTGG	5 cut(s)	157, 198, 359, 676, 715
Bse3DI	GCAATG	2 cut(s)	553, 646
Bse8I	GATNNNNATC	3 cut(s)	207, 810, 1092
BseBI	CCWGG	1 cut(s)	1297
BseDI	CCNNGG	3 cut(s)	768, 936, 992
BseGI	GGATG	3 cut(s)	123, 142, 685
BseJI	GATNNNNATC	3 cut(s)	207, 810, 1092
BseLI	CCNNNNNNNGG	4 cut(s)	993, 997, 1064, 1326
BseMI	GCAATG	2 cut(s)	553, 646
BseMII	CTCAG	3 cut(s)	231, 347, 819
BseNI	ACTGG	5 cut(s)	157, 198, 359, 676, 715
BseRI	GAGGAG	1 cut(s)	1286
BseXI	GCAGC	6 cut(s)	617, 906, 916, 1258, 1287, 1315
BseYI	CCCAGC	1 cut(s)	558
Bsh1236I	CGCG	1 cut(s)	149
BshFI	GGCC	1 cut(s)	454
BshNI	GGYRCC	2 cut(s)	1039, 1123
BsiSI	CCGG	2 cut(s)	172, 272
BslFI	GGGAC	1 cut(s)	1208
BslI	CCNNNNNNNGG	4 cut(s)	993, 997, 1064, 1326
BsmAI	GTCTC	1 cut(s)	850
BsmFI	GGGAC	1 cut(s)	1208
BsnI	GGCC	1 cut(s)	454
Bsp1407I	TGTACA	1 cut(s)	1051
Bsp143I	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
BspACI	CCGC	3 cut(s)	147, 214, 1121
BspANI	GGCC	1 cut(s)	454
BspCNI	CTCAG	3 cut(s)	232, 346, 820
BspFNI	CGCG	1 cut(s)	149
BspLI	GGNNCC	3 cut(s)	218, 1041, 1125
BspMAI	CTGCAG	2 cut(s)	1248, 1305
BspPI	GGATC	4 cut(s)	302, 800, 1082, 1106
BspT107I	GGYRCC	2 cut(s)	1039, 1123
BsrDI	GCAATG	2 cut(s)	553, 646
BsrGI	TGTACA	1 cut(s)	1051
BsrI	ACTGG	5 cut(s)	157, 198, 359, 676, 715
BssECI	CCNNGG	3 cut(s)	768, 936, 992
BssMI	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
BssT1I	CCWWGG	2 cut(s)	936, 992
Bst2UI	CCWGG	1 cut(s)	1297
Bst4CI	ACNGT	1 cut(s)	650
Bst6I	CTCTTC	2 cut(s)	848, 960
BstAPI	GCANNNNNTGC	3 cut(s)	611, 949, 1252
BstAUI	TGTACA	1 cut(s)	1051
BstC8I	GCNNGC	3 cut(s)	151, 324, 452
BstDEI	CTNAG	5 cut(s)	240, 333, 494, 790, 828
BstENI	CCTNNNNNAGG	1 cut(s)	991
BstF5I	GGATG	3 cut(s)	123, 142, 685
BstFNI	CGCG	1 cut(s)	149
BstKTI	GATC	9 cut(s)	9, 310, 378, 789, 808, 814, 1090, 1114, 1235
BstMAI	GTCTC	1 cut(s)	850
BstMBI	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
BstMWI	GCNNNNNNNGC	5 cut(s)	447, 555, 611, 949, 1252
BstNI	CCWGG	1 cut(s)	1297
BstSCI	CCNGG	1 cut(s)	1295
BstSFI	CTRYAG	2 cut(s)	1244, 1301
BstUI	CGCG	1 cut(s)	149
BstV1I	GCAGC	6 cut(s)	617, 906, 916, 1258, 1287, 1315
BstV2I	GAAGAC	1 cut(s)	885
BstX2I	RGATCY	1 cut(s)	786
BstYI	RGATCY	1 cut(s)	786
BsuRI	GGCC	1 cut(s)	454
BtrI	CACGTC	1 cut(s)	545
BtsCI	GGATG	3 cut(s)	123, 142, 685
BtsI	GCAGTG	1 cut(s)	1290
BtsIMutI	CAGTG	3 cut(s)	191, 366, 1290
Cac8I	GCNNGC	3 cut(s)	151, 324, 452
CaiI	CAGNNNCTG	2 cut(s)	431, 1252
Cfr13I	GGNCC	1 cut(s)	290
CseI	GACGC	1 cut(s)	225
Csp6I	GTAC	3 cut(s)	415, 1052, 1124
CviAII	CATG	2 cut(s)	677, 1021
CviQI	GTAC	3 cut(s)	415, 1052, 1124
DdeI	CTNAG	5 cut(s)	240, 333, 494, 790, 828
DpnI	GATC	9 cut(s)	8, 309, 377, 788, 807, 813, 1089, 1113, 1234
DpnII	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
DraI	TTTAAA	1 cut(s)	112
DrdI	GACNNNNNNGTC	1 cut(s)	203
DseDI	GACNNNNNNGTC	1 cut(s)	203
EaeI	YGGCCR	1 cut(s)	452
Eam1104I	CTCTTC	2 cut(s)	848, 960
EarI	CTCTTC	2 cut(s)	848, 960
Eco130I	CCWWGG	2 cut(s)	936, 992
Eco47I	GGWCC	1 cut(s)	290
Eco57I	CTGAAG	1 cut(s)	66
EcoNI	CCTNNNNNAGG	1 cut(s)	991
EcoRII	CCWGG	1 cut(s)	1295
EcoT14I	CCWWGG	2 cut(s)	936, 992
ErhI	CCWWGG	2 cut(s)	936, 992
FaeI	CATG	2 cut(s)	680, 1024
FaqI	GGGAC	1 cut(s)	1208
FatI	CATG	2 cut(s)	676, 1020
FauI	CCCGC	1 cut(s)	154
FauNDI	CATATG	2 cut(s)	97, 328
FbaI	TGATCA	1 cut(s)	811
FblI	GTMKAC	1 cut(s)	541
Fnu4HI	GCNGC	6 cut(s)	606, 905, 920, 1247, 1301, 1304
FokI	GGATG	3 cut(s)	129, 130, 672
Fsp4HI	GCNGC	6 cut(s)	606, 905, 920, 1247, 1301, 1304
FspBI	CTAG	1 cut(s)	993
GluI	GCNGC	6 cut(s)	606, 905, 920, 1247, 1301, 1304
GsaI	CCCAGC	1 cut(s)	562
GsuI	CTGGAG	2 cut(s)	732, 850
HaeIII	GGCC	1 cut(s)	454
HapII	CCGG	2 cut(s)	172, 272
HgaI	GACGC	1 cut(s)	225
Hin1II	CATG	2 cut(s)	680, 1024
HinfI	GANTC	2 cut(s)	748, 799
HpaII	CCGG	2 cut(s)	172, 272
HphI	GGTGA	2 cut(s)	346, 1193
Hpy166II	GTNNAC	4 cut(s)	76, 542, 1052, 1054
Hpy188I	TCNGA	7 cut(s)	241, 336, 397, 654, 829, 1211, 1232
Hpy188III	TCNNGA	6 cut(s)	44, 426, 699, 803, 809, 927
Hpy8I	GTNNAC	4 cut(s)	76, 542, 1052, 1054
Hpy99I	CGWCG	1 cut(s)	14
HpyAV	CCTTC	6 cut(s)	41, 235, 321, 576, 834, 1172
HpyCH4III	ACNGT	1 cut(s)	650
HpyCH4IV	ACGT	1 cut(s)	544
HpyCH4V	TGCA	6 cut(s)	101, 922, 943, 1246, 1266, 1303
HpyF10VI	GCNNNNNNNGC	5 cut(s)	447, 555, 611, 949, 1252
HpyF3I	CTNAG	5 cut(s)	240, 333, 494, 790, 828
HpySE526I	ACGT	1 cut(s)	544
Hsp92II	CATG	2 cut(s)	680, 1024
KpnI	GGTACC	1 cut(s)	1127
Ksp22I	TGATCA	1 cut(s)	811
Kzo9I	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
LmnI	GCTCC	4 cut(s)	370, 428, 901, 1289
Lsp1109I	GCAGC	6 cut(s)	617, 906, 916, 1258, 1287, 1315
LweI	GCATC	1 cut(s)	151
MaeI	CTAG	1 cut(s)	993
MaeII	ACGT	1 cut(s)	544
MaeIII	GTNAC	1 cut(s)	515
MalI	GATC	9 cut(s)	8, 309, 377, 788, 807, 813, 1089, 1113, 1234
MboI	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
MboII	GAAGA	3 cut(s)	865, 890, 977
MfeI	CAATTG	2 cut(s)	465, 1083
MflI	RGATCY	1 cut(s)	786
MlsI	TGGCCA	1 cut(s)	454
MluCI	AATT	4 cut(s)	465, 737, 1083, 1324
MluNI	TGGCCA	1 cut(s)	454
MlyI	GAGTC	1 cut(s)	757
Mox20I	TGGCCA	1 cut(s)	454
MscI	TGGCCA	1 cut(s)	454
MseI	TTAA	5 cut(s)	54, 111, 732, 885, 1323
MslI	CAYNNNNRTG	2 cut(s)	327, 359
Msp20I	TGGCCA	1 cut(s)	454
MspI	CCGG	2 cut(s)	172, 272
MspR9I	CCNGG	1 cut(s)	1297
MunI	CAATTG	2 cut(s)	465, 1083
MvaI	CCWGG	1 cut(s)	1297
MvnI	CGCG	1 cut(s)	149
MwoI	GCNNNNNNNGC	5 cut(s)	447, 555, 611, 949, 1252
NdeI	CATATG	2 cut(s)	97, 328
NdeII	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
NlaIII	CATG	2 cut(s)	680, 1024
NlaIV	GGNNCC	3 cut(s)	218, 1041, 1125
NmuCI	GTSAC	1 cut(s)	515
OliI	CACNNNNGTG	1 cut(s)	359
PfeI	GAWTC	1 cut(s)	799
PkrI	GCNGC	6 cut(s)	607, 906, 921, 1248, 1302, 1305
PleI	GAGTC	1 cut(s)	756
PpsI	GAGTC	1 cut(s)	756
PshBI	ATTAAT	1 cut(s)	885
Psp6I	CCWGG	1 cut(s)	1295
PspFI	CCCAGC	1 cut(s)	558
PspGI	CCWGG	1 cut(s)	1295
PspN4I	GGNNCC	3 cut(s)	218, 1041, 1125
PspPI	GGNCC	1 cut(s)	290
PstI	CTGCAG	2 cut(s)	1248, 1305
PstNI	CAGNNNCTG	2 cut(s)	431, 1252
PsuI	RGATCY	1 cut(s)	786
RsaI	GTAC	3 cut(s)	416, 1053, 1125
RsaNI	GTAC	3 cut(s)	415, 1052, 1124
RseI	CAYNNNNRTG	2 cut(s)	327, 359
SaqAI	TTAA	5 cut(s)	54, 111, 732, 885, 1323
SatI	GCNGC	6 cut(s)	606, 905, 920, 1247, 1301, 1304
Sau3AI	GATC	9 cut(s)	6, 307, 375, 786, 805, 811, 1087, 1111, 1232
Sau96I	GGNCC	1 cut(s)	290
SchI	GAGTC	1 cut(s)	757
ScrFI	CCNGG	1 cut(s)	1297
SfaNI	GCATC	1 cut(s)	151
SfcI	CTRYAG	2 cut(s)	1244, 1301
SinI	GGWCC	1 cut(s)	290
SmiMI	CAYNNNNRTG	2 cut(s)	327, 359
SmlI	CTYRAG	1 cut(s)	1168
SmoI	CTYRAG	1 cut(s)	1168
Sse9I	AATT	4 cut(s)	465, 737, 1083, 1324
SsiI	CCGC	3 cut(s)	147, 214, 1121
SspMI	CTAG	1 cut(s)	993
StyD4I	CCNGG	1 cut(s)	1295
StyI	CCWWGG	2 cut(s)	936, 992
TaaI	ACNGT	1 cut(s)	650
TaiI	ACGT	1 cut(s)	547
TaqI	TCGA	3 cut(s)	9, 698, 1310
TasI	AATT	4 cut(s)	465, 737, 1083, 1324
TatI	WGTACW	1 cut(s)	1051
TfiI	GAWTC	1 cut(s)	799
Tru1I	TTAA	5 cut(s)	54, 111, 732, 885, 1323
Tru9I	TTAA	5 cut(s)	54, 111, 732, 885, 1323
TscAI	CASTG	3 cut(s)	198, 366, 1297
TseFI	GTSAC	1 cut(s)	515
TseI	GCWGC	6 cut(s)	605, 904, 919, 1246, 1300, 1303
Tsp45I	GTSAC	1 cut(s)	515
TspDTI	ATGAA	7 cut(s)	33, 542, 609, 657, 795, 1037, 1203
TspRI	CASTG	3 cut(s)	198, 366, 1297
VpaK11BI	GGWCC	1 cut(s)	290
VspI	ATTAAT	1 cut(s)	885
XagI	CCTNNNNNAGG	1 cut(s)	991
XmaJI	CCTAGG	1 cut(s)	992
XmiI	GTMKAC	1 cut(s)	541
XspI	CTAG	1 cut(s)	993

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