Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr14

Orthogroup ID

OG0021133

Physical Location & Seq

Genomic Coordinates Forward (+)

20326896 .. 20329857

Gene Structure 2962 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD14G1127500.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1038 bp

ATGATTGTAGAATATGAACAGAAGCAAGGCAATGTTGTTCCTGATGGATTTAATTCTCATTATCTCAAAGTTTACTATGGAAAACTCTTTCCATATGCAGATATTTTTAAATGGATGTCCTATGGAAATGATGGGAAGCATCCTGCGTGTGACCAGTCTTACTTTAGCCGGAGAGAGTTCTCTTTCACACAGGAAAATGATGTCTATCTGCGGTTCCAGTCCTTCAACTCTGTGCCTGAGCTTGAAAGTTCTGTCAAAGAAAAGTGTCCAGTCAAAATAGATATTGGGCCTGTGTACAGTGTTGATCCTGCAAAGAGGCACGCATATGCTCAGAGTGGCGATAATGTTTTCACCCCAGTGGAGAGGGAACTGATTTTCGATATAGATATGTCTGACTACAATGATGTGAGGTACTGCTGTTCAGGAGCTGACGTTTGCTTGGAGTGCTGGCCACTTATGACAATTGCTATTAAAGTGATTGATACAGCCCTTAGAGATGACTTTGGTTTCAGTCACATTCTCTGGGTATATAGTGGTAGACGTGGAGTTCATTGCTGGGTTTGTGATGGGAAAGCAAGAAGGCTCACAAATGAACAGAGAGCAGCTATTGCTGACTATTTTTGTGTCTATAAGGTGGATCACTGTTTAAATGAAATGAAAACAGTCAGAAAAAGGTTTCTTTTCCCGGTCTTGCTCTCCATCTGTTCCTTGCGTAAGAGATCTTATACTGGAGTTCTTACAGAGTTCTTTAAGAAATTGCTTTTGAGTCAAAAGATATTTTCAACTGAGGAGAGATATGAAAAGATCTTAGATATGATTCCCGATCCTGATCAATGTATTCGATGTTTCTTTTCATCGCCTATGCATCTCTATGCCCTATCCTGGAATCTCTATGCCCTATCCTGGAATGATGGTCGAGTTATAGTACTTTATTTATCCTTCCAGCTATTACTTCTGAGCTTCATGGAAGGTGGCAAGAGAAGAGACAAACCCCCGGTTCAAAAGAAGACATTAATGTTGTTCGATGGGAGCAGCTAA

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

346

Amino Acids

40.22

Weight (kDa)

7.87

Isoelectric Point (pI)

50.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DNA_primase_S	PF01896	126 - 272	9.7e-32	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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Orthologous Genes (Group: OG0021133)

Species	Orthologous Gene IDs
malus_domestica	MD14G1127500.v1.1
rosa_chinensis	RchiOBHm_Chr6g0245381
rosa_multiflora	Rmu_sc0000471.1_g000004 Rmu_sc0002202.1_g000012
rosa_samantha	Rh6BG026200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	538
AciI	CCGC	1 cut(s)	211
AclWI	GGATC	3 cut(s)	299, 645, 818
AcoI	YGGCCR	1 cut(s)	449
AfaI	GTAC	3 cut(s)	296, 413, 927
AfiI	CCNNNNNNNGG	2 cut(s)	882, 903
AgsI	TTSAA	4 cut(s)	226, 245, 783, 1001
AjiI	CACGTC	1 cut(s)	542
AjnI	CCWGG	2 cut(s)	881, 902
AleI	CACNNNNGTG	1 cut(s)	356
AluBI	AGCT	6 cut(s)	241, 428, 605, 946, 960, 1035
AluI	AGCT	6 cut(s)	241, 428, 605, 946, 960, 1035
Alw26I	GTCTC	1 cut(s)	978
AlwI	GGATC	3 cut(s)	299, 645, 818
AlwNI	CAGNNNCTG	1 cut(s)	428
AoxI	GGCC	2 cut(s)	287, 449
ApeKI	GCWGC	2 cut(s)	602, 1032
AseI	ATTAAT	1 cut(s)	1013
AspS9I	GGNCC	1 cut(s)	287
AsuC2I	CCSGG	2 cut(s)	686, 995
AsuHPI	GGTGA	1 cut(s)	343
BaeI	ACNNNNGTAYC	2 cut(s)	403, 436
BalI	TGGCCA	1 cut(s)	451
BbsI	GAAGAC	1 cut(s)	1013
BbvI	GCAGC	1 cut(s)	614
BccI	CCATC	6 cut(s)	38, 125, 560, 707, 905, 1019
BciT130I	CCWGG	2 cut(s)	883, 904
BclI	TGATCA	1 cut(s)	829
BcnI	CCSGG	2 cut(s)	686, 995
BcoDI	GTCTC	1 cut(s)	978
BglII	AGATCT	2 cut(s)	719, 804
BisI	GCNGC	2 cut(s)	603, 1033
BlsI	GCNGC	2 cut(s)	604, 1034
BmcAI	AGTACT	1 cut(s)	927
Bme1390I	CCNGG	4 cut(s)	686, 883, 904, 995
BmgBI	CACGTC	1 cut(s)	542
BmgT120I	GGNCC	1 cut(s)	287
BmiI	GGNNCC	1 cut(s)	215
BmrFI	CCNGG	4 cut(s)	686, 883, 904, 995
BmrI	ACTGGG	1 cut(s)	350
BmsI	GCATC	2 cut(s)	148, 874
BmuI	ACTGGG	1 cut(s)	350
BpiI	GAAGAC	1 cut(s)	1013
BpmI	CTGGAG	1 cut(s)	750
Bpu10I	CCTNAGC	1 cut(s)	237
BpuMI	CCSGG	2 cut(s)	686, 995
BsaBI	GATNNNNATC	2 cut(s)	204, 828
BsaJI	CCNNGG	1 cut(s)	993
BsaXI	ACNNNNNCTCC	2 cut(s)	417, 447
Bsc4I	CCNNNNNNNGG	2 cut(s)	882, 903
Bse1I	ACTGG	5 cut(s)	154, 217, 269, 356, 733
Bse3DI	GCAATG	2 cut(s)	37, 550
Bse8I	GATNNNNATC	2 cut(s)	204, 828
BseBI	CCWGG	2 cut(s)	883, 904
BseDI	CCNNGG	1 cut(s)	993
BseGI	GGATG	2 cut(s)	120, 139
BseJI	GATNNNNATC	2 cut(s)	204, 828
BseLI	CCNNNNNNNGG	2 cut(s)	882, 903
BseMI	GCAATG	2 cut(s)	37, 550
BseMII	CTCAG	4 cut(s)	228, 344, 777, 947
BseNI	ACTGG	5 cut(s)	154, 217, 269, 356, 733
BseRI	GAGGAG	1 cut(s)	803
BseXI	GCAGC	1 cut(s)	614
BseYI	CCCAGC	1 cut(s)	555
BshFI	GGCC	2 cut(s)	289, 451
BsiSI	CCGG	3 cut(s)	169, 686, 995
BslI	CCNNNNNNNGG	2 cut(s)	882, 903
BsmAI	GTCTC	1 cut(s)	978
BsnI	GGCC	2 cut(s)	289, 451
Bsp1407I	TGTACA	1 cut(s)	294
Bsp143I	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
BspACI	CCGC	1 cut(s)	211
BspANI	GGCC	2 cut(s)	289, 451
BspCNI	CTCAG	4 cut(s)	229, 343, 778, 948
BspLI	GGNNCC	1 cut(s)	215
BspPI	GGATC	3 cut(s)	299, 645, 818
BsrDI	GCAATG	2 cut(s)	37, 550
BsrGI	TGTACA	1 cut(s)	294
BsrI	ACTGG	5 cut(s)	154, 217, 269, 356, 733
BssECI	CCNNGG	1 cut(s)	993
BssMI	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
Bst2UI	CCWGG	2 cut(s)	883, 904
Bst4CI	ACNGT	3 cut(s)	299, 644, 664
Bst6I	CTCTTC	1 cut(s)	976
BstAPI	GCANNNNNTGC	1 cut(s)	608
BstAUI	TGTACA	1 cut(s)	294
BstC8I	GCNNGC	2 cut(s)	321, 449
BstDEI	CTNAG	6 cut(s)	237, 330, 491, 786, 808, 956
BstF5I	GGATG	2 cut(s)	120, 139
BstKTI	GATC	6 cut(s)	307, 640, 722, 807, 826, 832
BstMAI	GTCTC	1 cut(s)	978
BstMBI	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
BstMWI	GCNNNNNNNGC	2 cut(s)	444, 608
BstNI	CCWGG	2 cut(s)	883, 904
BstSCI	CCNGG	4 cut(s)	684, 881, 902, 993
BstV1I	GCAGC	1 cut(s)	614
BstV2I	GAAGAC	1 cut(s)	1013
BstX2I	RGATCY	2 cut(s)	719, 804
BstYI	RGATCY	2 cut(s)	719, 804
BsuRI	GGCC	2 cut(s)	289, 451
BtgZI	GCGATG	1 cut(s)	840
BtrI	CACGTC	1 cut(s)	542
BtsCI	GGATG	2 cut(s)	120, 139
BtsIMutI	CAGTG	3 cut(s)	304, 363, 640
Cac8I	GCNNGC	2 cut(s)	321, 449
CaiI	CAGNNNCTG	1 cut(s)	428
Cfr13I	GGNCC	1 cut(s)	287
Csp6I	GTAC	3 cut(s)	295, 412, 926
CviAII	CATG	1 cut(s)	964
CviQI	GTAC	3 cut(s)	295, 412, 926
DdeI	CTNAG	6 cut(s)	237, 330, 491, 786, 808, 956
DpnI	GATC	6 cut(s)	306, 639, 721, 806, 825, 831
DpnII	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
DraI	TTTAAA	2 cut(s)	109, 648
EaeI	YGGCCR	1 cut(s)	449
Eam1104I	CTCTTC	1 cut(s)	976
EarI	CTCTTC	1 cut(s)	976
EcoRII	CCWGG	2 cut(s)	881, 902
EcoT22I	ATGCAT	1 cut(s)	867
FaeI	CATG	1 cut(s)	967
FatI	CATG	1 cut(s)	963
FauNDI	CATATG	2 cut(s)	94, 325
FbaI	TGATCA	1 cut(s)	829
FblI	GTMKAC	1 cut(s)	538
Fnu4HI	GCNGC	2 cut(s)	603, 1033
FokI	GGATG	2 cut(s)	126, 127
Fsp4HI	GCNGC	2 cut(s)	603, 1033
GluI	GCNGC	2 cut(s)	603, 1033
GsaI	CCCAGC	1 cut(s)	559
GsuI	CTGGAG	1 cut(s)	750
HaeIII	GGCC	2 cut(s)	289, 451
HapII	CCGG	3 cut(s)	169, 686, 995
Hin1II	CATG	1 cut(s)	967
HinfI	GANTC	3 cut(s)	766, 817, 886
HpaII	CCGG	3 cut(s)	169, 686, 995
HphI	GGTGA	1 cut(s)	343
Hpy166II	GTNNAC	3 cut(s)	73, 295, 539
Hpy188I	TCNGA	4 cut(s)	333, 394, 668, 957
Hpy188III	TCNNGA	4 cut(s)	41, 423, 821, 827
Hpy8I	GTNNAC	3 cut(s)	73, 295, 539
HpyAV	CCTTC	4 cut(s)	232, 573, 949, 962
HpyCH4III	ACNGT	3 cut(s)	299, 644, 664
HpyCH4IV	ACGT	2 cut(s)	432, 541
HpyCH4V	TGCA	3 cut(s)	98, 311, 865
HpyF10VI	GCNNNNNNNGC	2 cut(s)	444, 608
HpyF3I	CTNAG	6 cut(s)	237, 330, 491, 786, 808, 956
HpySE526I	ACGT	2 cut(s)	432, 541
Hsp92II	CATG	1 cut(s)	967
Ksp22I	TGATCA	1 cut(s)	829
Kzo9I	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
LmnI	GCTCC	2 cut(s)	425, 1029
Lsp1109I	GCAGC	1 cut(s)	614
LweI	GCATC	2 cut(s)	148, 874
MaeII	ACGT	2 cut(s)	432, 541
MaeIII	GTNAC	2 cut(s)	149, 512
MalI	GATC	6 cut(s)	306, 639, 721, 806, 825, 831
MboI	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
MboII	GAAGA	2 cut(s)	993, 1018
MfeI	CAATTG	1 cut(s)	462
MflI	RGATCY	2 cut(s)	719, 804
MlsI	TGGCCA	1 cut(s)	451
MluCI	AATT	3 cut(s)	52, 462, 755
MluNI	TGGCCA	1 cut(s)	451
MlyI	GAGTC	1 cut(s)	775
MnlI	CCTC	4 cut(s)	309, 357, 402, 781
Mox20I	TGGCCA	1 cut(s)	451
Mph1103I	ATGCAT	1 cut(s)	867
MscI	TGGCCA	1 cut(s)	451
MseI	TTAA	6 cut(s)	51, 108, 471, 647, 750, 1013
MslI	CAYNNNNRTG	3 cut(s)	324, 356, 870
Msp20I	TGGCCA	1 cut(s)	451
MspI	CCGG	3 cut(s)	169, 686, 995
MspR9I	CCNGG	4 cut(s)	686, 883, 904, 995
MunI	CAATTG	1 cut(s)	462
MvaI	CCWGG	2 cut(s)	883, 904
MwoI	GCNNNNNNNGC	2 cut(s)	444, 608
NciI	CCSGG	2 cut(s)	686, 995
NdeI	CATATG	2 cut(s)	94, 325
NdeII	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
NlaIII	CATG	1 cut(s)	967
NlaIV	GGNNCC	1 cut(s)	215
NmuCI	GTSAC	2 cut(s)	149, 512
NsiI	ATGCAT	1 cut(s)	867
OliI	CACNNNNGTG	1 cut(s)	356
PfeI	GAWTC	2 cut(s)	817, 886
PfoI	TCCNGGA	2 cut(s)	881, 902
PkrI	GCNGC	2 cut(s)	604, 1034
PleI	GAGTC	1 cut(s)	774
PpsI	GAGTC	1 cut(s)	774
PshBI	ATTAAT	1 cut(s)	1013
Psp6I	CCWGG	2 cut(s)	881, 902
PspFI	CCCAGC	1 cut(s)	555
PspGI	CCWGG	2 cut(s)	881, 902
PspN4I	GGNNCC	1 cut(s)	215
PspPI	GGNCC	1 cut(s)	287
PstNI	CAGNNNCTG	1 cut(s)	428
PsuI	RGATCY	2 cut(s)	719, 804
RsaI	GTAC	3 cut(s)	296, 413, 927
RsaNI	GTAC	3 cut(s)	295, 412, 926
RseI	CAYNNNNRTG	3 cut(s)	324, 356, 870
SaqAI	TTAA	6 cut(s)	51, 108, 471, 647, 750, 1013
SatI	GCNGC	2 cut(s)	603, 1033
Sau3AI	GATC	6 cut(s)	304, 637, 719, 804, 823, 829
Sau96I	GGNCC	1 cut(s)	287
ScaI	AGTACT	1 cut(s)	927
SchI	GAGTC	1 cut(s)	775
ScrFI	CCNGG	4 cut(s)	686, 883, 904, 995
SfaNI	GCATC	2 cut(s)	148, 874
SmiMI	CAYNNNNRTG	3 cut(s)	324, 356, 870
Sse9I	AATT	3 cut(s)	52, 462, 755
SsiI	CCGC	1 cut(s)	211
StyD4I	CCNGG	4 cut(s)	684, 881, 902, 993
TaaI	ACNGT	3 cut(s)	299, 644, 664
TaiI	ACGT	2 cut(s)	435, 544
TaqI	TCGA	4 cut(s)	378, 841, 916, 1023
TasI	AATT	3 cut(s)	52, 462, 755
TatI	WGTACW	2 cut(s)	294, 925
TfiI	GAWTC	2 cut(s)	817, 886
Tru1I	TTAA	6 cut(s)	51, 108, 471, 647, 750, 1013
Tru9I	TTAA	6 cut(s)	51, 108, 471, 647, 750, 1013
TscAI	CASTG	3 cut(s)	304, 363, 647
TseFI	GTSAC	2 cut(s)	149, 512
TseI	GCWGC	2 cut(s)	602, 1032
Tsp45I	GTSAC	2 cut(s)	149, 512
TspDTI	ATGAA	8 cut(s)	30, 539, 606, 666, 671, 813, 843, 952
TspRI	CASTG	3 cut(s)	304, 363, 647
VspI	ATTAAT	1 cut(s)	1013
XmiI	GTMKAC	1 cut(s)	538
ZrmI	AGTACT	1 cut(s)	927
Zsp2I	ATGCAT	1 cut(s)	867

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