MD13G1227300.v1.1

This protein is an auxiliary protein of DNA polymerase delta and is involved in the control of eukaryotic DNA replication by increasing the polymerase's processibility during elongation of the leading strand

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr13
OG0011395
Physical Location & Seq
Reverse (-)
22231755 .. 22233653
1899 bp
Loading structure...
UTR
Exon/CDS
Intron
MD13G1227300.v1.1.491

Sequence Viewer

Length: 804 bp
ATGTTGGAGCTCCGACTGGTTCAGGGGTCGCTGCTGAAGAAGGTGCTGGAGTCCATCAAGGACCTGGTGAACGACGCCAACTTCGACTGCTCCTCCTCCGGCTTCTCCCTCCAGGCCATGGACTCCAGCCACGTGGCGCTCGTCGCCCTCCTCCTCAGATCCGAGGGCTTCGAGCACTACCGCTGCGACCGCAACATGTCCATGGGCATGAACCTCGGCAACATGTCCAAGATGCTCAGGTGCGCCGGAAATGATGACATCATCACCATCAAGGCTGACGATGGCAGTGACACGGTCACCTTCATGTTCGAAAGCCCCACACAAGATAAAATTTCTGATTTTGAGATGAAGCTGATGGATATTGATAGCGAGCACCTAGGAATTCCGGAGGCAGAATACCAGTCAATTGTGACAATGCCCTCGGCTGAGTTTGCTAGGATATGTAAGGACCTCAGCGGCATTGGTGATACAGTTGTGATATCTGTGACCAAGGAAGGTGTGAAGTTCTCCACAAGAGGGGATATAGGCACTGCTAACATTGTCTGTCGGCAGAACACTACTGTTGACAAGCCTGAAGAAGCAACGGTCATAAACATGAGCGAGCCAGTGTCGTTGACATTCGCTCTGAGGTACATGAACTCGTTCACAAAGGCAACCACATTGTCGAATACAGTCACAATCAGCTTGTCTTCTGAACTTCCAGTCGTGGTTGAGTACAAGATTGCAGAGATGGGCTACATTAGGTTCTACTTGGCTCCCAAGATAGAAGAAGACGATGAAGGCGAAACCAAGCCTGAAGTTTGA

Protein Analysis

268

Amino Acids

29.5

Weight (kDa)

4.57

Isoelectric Point (pI)

42.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCNA_N PF00705 1 - 125 1.4e-58 Proliferating cell nuclear antigen, N-terminal domain
Rad9 PF04139 13 - 229 1.9e-06 Rad9
PCNA_C PF02747 127 - 254 1.3e-59 Proliferating cell nuclear antigen, C-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0011395)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G07370 AT2G29570
fragaria_vesca FvH4_3g37710 FvH4_6g24870
malus_domestica MD03G1078300.v1.1 MD11G1083000.v1.1 MD13G1227300.v1.1
prunus_persica Prupe.6G063300_v2.0.a1
pyrus_communis pycom03g06260 pycom11g07110
rosa_chinensis RchiOBHm_Chr5g0067981
rosa_laevigata RLG00000035949
rosa_multiflora Rmu_sc0000435.1_g000036
rosa_roxburghii Rroxscaffold_1G00012620 Rroxscaffold_1G00013330
rosa_rugosa Rorug05G0387000
rosa_samantha Rh5BG463400 Rh5CG485300 Rh5DG477400
rosa_wichuraiana Rw5G041640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 118
AccIII TCCGGA 1 cut(s) 385
AciI CCGC 3 cut(s) 181, 190, 456
AclWI GGATC 1 cut(s) 153
AcsI RAATTY 2 cut(s) 330, 381
AcuI CTGAAG 2 cut(s) 56, 594
AcvI CACGTG 1 cut(s) 133
AcyI GRCGYC 1 cut(s) 75
AfaI GTAC 2 cut(s) 632, 716
AfiI CCNNNNNNNGG 2 cut(s) 118, 516
AflIII ACRYGT 2 cut(s) 195, 222
AjnI CCWGG 2 cut(s) 63, 111
AluBI AGCT 3 cut(s) 10, 352, 684
AluI AGCT 3 cut(s) 10, 352, 684
Alw21I GWGCWC 3 cut(s) 12, 177, 375
AlwI GGATC 1 cut(s) 153
Aor13HI TCCGGA 1 cut(s) 385
AoxI GGCC 1 cut(s) 114
ApeKI GCWGC 2 cut(s) 31, 183
ApoI RAATTY 2 cut(s) 330, 381
ArsI GACNNNNNNTTYG 2 cut(s) 65, 97
Asp700I GAANNNNTTC 1 cut(s) 641
AspA2I CCTAGG 1 cut(s) 376
AspLEI GCGC 2 cut(s) 139, 245
AspS9I GGNCC 2 cut(s) 61, 448
AsuHPI GGTGA 4 cut(s) 79, 256, 289, 476
AsuII TTCGAA 1 cut(s) 309
AvaII GGWCC 2 cut(s) 61, 448
AvrII CCTAGG 1 cut(s) 376
BaeI ACNNNNGTAYC 2 cut(s) 459, 492
BanII GRGCYC 1 cut(s) 12
BbrPI CACGTG 1 cut(s) 133
BbsI GAAGAC 2 cut(s) 681, 777
Bbv12I GWGCWC 3 cut(s) 12, 177, 375
BbvCI CCTCAGC 1 cut(s) 452
BbvI GCAGC 2 cut(s) 18, 170
BccI CCATC 5 cut(s) 62, 275, 275, 349, 724
BcgI CGANNNNNNTGC 2 cut(s) 196, 230
BciT130I CCWGG 2 cut(s) 65, 113
BfaI CTAG 2 cut(s) 377, 435
BfoI RGCGCY 1 cut(s) 140
BisI GCNGC 3 cut(s) 32, 184, 457
BlnI CCTAGG 1 cut(s) 376
BlsI GCNGC 3 cut(s) 33, 185, 458
Bme1390I CCNGG 2 cut(s) 65, 113
Bme18I GGWCC 2 cut(s) 61, 448
BmgT120I GGNCC 2 cut(s) 61, 448
BmiI GGNNCC 1 cut(s) 756
BmrFI CCNGG 2 cut(s) 65, 113
BmsI GCATC 1 cut(s) 222
BpiI GAAGAC 2 cut(s) 681, 777
BpmI CTGGAG 3 cut(s) 68, 95, 109
Bpu10I CCTNAGC 2 cut(s) 236, 452
Bpu14I TTCGAA 1 cut(s) 309
BsaAI YACGTR 1 cut(s) 133
BsaHI GRCGYC 1 cut(s) 75
BsaJI CCNNGG 7 cut(s) 117, 162, 201, 214, 376, 420, 489
BsaWI WCCGGW 1 cut(s) 385
BsaXI ACNNNNNCTCC 2 cut(s) 77, 107
Bsc4I CCNNNNNNNGG 2 cut(s) 118, 516
Bse1I ACTGG 4 cut(s) 21, 400, 605, 701
BseAI TCCGGA 1 cut(s) 385
BseBI CCWGG 2 cut(s) 65, 113
BseDI CCNNGG 7 cut(s) 117, 162, 201, 214, 376, 420, 489
BseLI CCNNNNNNNGG 2 cut(s) 118, 516
BseMII CTCAG 5 cut(s) 169, 250, 417, 466, 617
BseNI ACTGG 4 cut(s) 21, 400, 605, 701
BseRI GAGGAG 4 cut(s) 82, 85, 140, 143
BseXI GCAGC 2 cut(s) 18, 170
Bsh1285I CGRYCG 1 cut(s) 190
BshFI GGCC 1 cut(s) 116
BsiEI CGRYCG 1 cut(s) 190
BsiHKAI GWGCWC 3 cut(s) 12, 177, 375
BsiSI CCGG 3 cut(s) 99, 246, 386
BslI CCNNNNNNNGG 2 cut(s) 118, 516
BsnI GGCC 1 cut(s) 116
Bsp119I TTCGAA 1 cut(s) 309
Bsp1286I GDGCHC 3 cut(s) 12, 177, 375
Bsp13I TCCGGA 1 cut(s) 385
Bsp143I GATC 1 cut(s) 158
Bsp19I CCATGG 2 cut(s) 117, 201
BspACI CCGC 3 cut(s) 181, 190, 456
BspANI GGCC 1 cut(s) 116
BspCNI CTCAG 5 cut(s) 168, 249, 418, 465, 618
BspEI TCCGGA 1 cut(s) 385
BspLI GGNNCC 1 cut(s) 756
BspPI GGATC 1 cut(s) 153
BspT104I TTCGAA 1 cut(s) 309
BsrI ACTGG 4 cut(s) 21, 400, 605, 701
BssECI CCNNGG 7 cut(s) 117, 162, 201, 214, 376, 420, 489
BssMI GATC 1 cut(s) 158
BssNI GRCGYC 1 cut(s) 75
BssT1I CCWWGG 4 cut(s) 117, 201, 376, 489
Bst2UI CCWGG 2 cut(s) 65, 113
Bst4CI ACNGT 5 cut(s) 295, 472, 562, 586, 673
BstACI GRCGYC 1 cut(s) 75
BstBAI YACGTR 1 cut(s) 133
BstBI TTCGAA 1 cut(s) 309
BstC8I GCNNGC 2 cut(s) 371, 602
BstDEI CTNAG 5 cut(s) 155, 236, 426, 452, 626
BstDSI CCRYGG 2 cut(s) 117, 201
BstEII GGTNACC 1 cut(s) 295
BstH2I RGCGCY 1 cut(s) 140
BstHHI GCGC 2 cut(s) 139, 245
BstKTI GATC 1 cut(s) 161
BstMBI GATC 1 cut(s) 158
BstMCI CGRYCG 1 cut(s) 190
BstMWI GCNNNNNNNGC 3 cut(s) 143, 189, 431
BstNI CCWGG 2 cut(s) 65, 113
BstNSI RCATGY 2 cut(s) 199, 226
BstPI GGTNACC 1 cut(s) 295
BstSCI CCNGG 2 cut(s) 63, 111
BstV1I GCAGC 2 cut(s) 18, 170
BstV2I GAAGAC 2 cut(s) 681, 777
BstX2I RGATCY 1 cut(s) 158
BstXI CCANNNNNNTGG 1 cut(s) 133
BstYI RGATCY 1 cut(s) 158
BsuRI GGCC 1 cut(s) 116
BtgI CCRYGG 2 cut(s) 117, 201
BtsI GCAGTG 2 cut(s) 292, 528
BtsIMutI CAGTG 3 cut(s) 292, 528, 612
Cac8I GCNNGC 2 cut(s) 371, 602
CfoI GCGC 2 cut(s) 139, 245
Cfr13I GGNCC 2 cut(s) 61, 448
CseI GACGC 1 cut(s) 83
CsiI ACCWGGT 1 cut(s) 63
Csp6I GTAC 2 cut(s) 631, 715
CviAII CATG 8 cut(s) 118, 196, 202, 208, 223, 304, 595, 634
CviQI GTAC 2 cut(s) 631, 715
DdeI CTNAG 5 cut(s) 155, 236, 426, 452, 626
DpnI GATC 1 cut(s) 160
DpnII GATC 1 cut(s) 158
Ecl136II GAGCTC 1 cut(s) 10
Eco130I CCWWGG 4 cut(s) 117, 201, 376, 489
Eco24I GRGCYC 1 cut(s) 12
Eco32I GATATC 1 cut(s) 480
Eco47I GGWCC 2 cut(s) 61, 448
Eco53kI GAGCTC 1 cut(s) 10
Eco57I CTGAAG 2 cut(s) 56, 594
Eco72I CACGTG 1 cut(s) 133
Eco91I GGTNACC 1 cut(s) 295
EcoICRI GAGCTC 1 cut(s) 10
EcoO109I RGGNCCY 2 cut(s) 61, 448
EcoO65I GGTNACC 1 cut(s) 295
EcoRI GAATTC 1 cut(s) 381
EcoRII CCWGG 2 cut(s) 63, 111
EcoRV GATATC 1 cut(s) 480
EcoT14I CCWWGG 4 cut(s) 117, 201, 376, 489
EcoT38I GRGCYC 1 cut(s) 12
ErhI CCWWGG 4 cut(s) 117, 201, 376, 489
FaeI CATG 8 cut(s) 121, 199, 205, 211, 226, 307, 598, 637
FatI CATG 8 cut(s) 117, 195, 201, 207, 222, 303, 594, 633
Fnu4HI GCNGC 3 cut(s) 32, 184, 457
FriOI GRGCYC 1 cut(s) 12
Fsp4HI GCNGC 3 cut(s) 32, 184, 457
FspBI CTAG 2 cut(s) 377, 435
GlaI GCGC 2 cut(s) 138, 244
GluI GCNGC 3 cut(s) 32, 184, 457
GsuI CTGGAG 3 cut(s) 68, 95, 109
HaeII RGCGCY 1 cut(s) 140
HaeIII GGCC 1 cut(s) 116
HapII CCGG 3 cut(s) 99, 246, 386
HgaI GACGC 1 cut(s) 83
HhaI GCGC 2 cut(s) 139, 245
Hin1I GRCGYC 1 cut(s) 75
Hin1II CATG 8 cut(s) 121, 199, 205, 211, 226, 307, 598, 637
Hin6I GCGC 2 cut(s) 137, 243
HinP1I GCGC 2 cut(s) 137, 243
HincII GTYRAC 2 cut(s) 565, 615
HindII GTYRAC 2 cut(s) 565, 615
HinfI GANTC 2 cut(s) 50, 122
HpaII CCGG 3 cut(s) 99, 246, 386
HphI GGTGA 4 cut(s) 79, 256, 289, 476
Hpy166II GTNNAC 4 cut(s) 70, 565, 615, 645
Hpy188I TCNGA 6 cut(s) 14, 158, 163, 337, 627, 694
Hpy188III TCNNGA 1 cut(s) 386
Hpy8I GTNNAC 4 cut(s) 70, 565, 615, 645
Hpy99I CGWCG 2 cut(s) 77, 146
HpyAV CCTTC 4 cut(s) 34, 310, 488, 773
HpyCH4III ACNGT 5 cut(s) 295, 472, 562, 586, 673
HpyCH4IV ACGT 1 cut(s) 132
HpyCH4V TGCA 1 cut(s) 725
HpyF10VI GCNNNNNNNGC 3 cut(s) 143, 189, 431
HpyF3I CTNAG 5 cut(s) 155, 236, 426, 452, 626
HpySE526I ACGT 1 cut(s) 132
Hsp92I GRCGYC 1 cut(s) 75
Hsp92II CATG 8 cut(s) 121, 199, 205, 211, 226, 307, 598, 637
HspAI GCGC 2 cut(s) 137, 243
Kpn2I TCCGGA 1 cut(s) 385
Kzo9I GATC 1 cut(s) 158
LmnI GCTCC 4 cut(s) 7, 15, 95, 760
Lsp1109I GCAGC 2 cut(s) 18, 170
LweI GCATC 1 cut(s) 222
MabI ACCWGGT 1 cut(s) 63
MaeI CTAG 2 cut(s) 377, 435
MaeII ACGT 1 cut(s) 132
MaeIII GTNAC 5 cut(s) 287, 295, 409, 484, 673
MalI GATC 1 cut(s) 160
MboI GATC 1 cut(s) 158
MboII GAAGA 5 cut(s) 49, 587, 681, 779, 782
MfeI CAATTG 1 cut(s) 405
MflI RGATCY 1 cut(s) 158
MhlI GDGCHC 3 cut(s) 12, 177, 375
MluCI AATT 3 cut(s) 330, 381, 405
MlyI GAGTC 2 cut(s) 59, 116
MmeI TCCRAC 1 cut(s) 37
MroI TCCGGA 1 cut(s) 385
MroXI GAANNNNTTC 1 cut(s) 641
MslI CAYNNNNRTG 4 cut(s) 200, 206, 302, 593
MspA1I CMGCKG 2 cut(s) 183, 456
MspI CCGG 3 cut(s) 99, 246, 386
MspR9I CCNGG 2 cut(s) 65, 113
MunI CAATTG 1 cut(s) 405
MvaI CCWGG 2 cut(s) 65, 113
MwoI GCNNNNNNNGC 3 cut(s) 143, 189, 431
NcoI CCATGG 2 cut(s) 117, 201
NdeII GATC 1 cut(s) 158
NlaIII CATG 8 cut(s) 121, 199, 205, 211, 226, 307, 598, 637
NlaIV GGNNCC 1 cut(s) 756
NmeAIII GCCGAG 2 cut(s) 195, 401
NmuCI GTSAC 5 cut(s) 287, 295, 409, 484, 673
NspI RCATGY 2 cut(s) 199, 226
NspV TTCGAA 1 cut(s) 309
PciI ACATGT 2 cut(s) 195, 222
PcsI WCGNNNNNNNCGW 3 cut(s) 81, 138, 780
PdmI GAANNNNTTC 1 cut(s) 641
PflFI GACNNNGTC 1 cut(s) 293
PflMI CCANNNNNTGG 1 cut(s) 118
PkrI GCNGC 3 cut(s) 33, 185, 458
PleI GAGTC 2 cut(s) 58, 116
PmaCI CACGTG 1 cut(s) 133
PmlI CACGTG 1 cut(s) 133
PpsI GAGTC 2 cut(s) 58, 116
Ppu21I YACGTR 1 cut(s) 133
PpuMI RGGWCCY 2 cut(s) 61, 448
PscI ACATGT 2 cut(s) 195, 222
Psp124BI GAGCTC 1 cut(s) 12
Psp5II RGGWCCY 2 cut(s) 61, 448
Psp6I CCWGG 2 cut(s) 63, 111
PspCI CACGTG 1 cut(s) 133
PspEI GGTNACC 1 cut(s) 295
PspGI CCWGG 2 cut(s) 63, 111
PspN4I GGNNCC 1 cut(s) 756
PspPI GGNCC 2 cut(s) 61, 448
PspPPI RGGWCCY 2 cut(s) 61, 448
PsuI RGATCY 1 cut(s) 158
PsyI GACNNNGTC 1 cut(s) 293
RsaI GTAC 2 cut(s) 632, 716
RsaNI GTAC 2 cut(s) 631, 715
RseI CAYNNNNRTG 4 cut(s) 200, 206, 302, 593
SacI GAGCTC 1 cut(s) 12
SatI GCNGC 3 cut(s) 32, 184, 457
Sau3AI GATC 1 cut(s) 158
Sau96I GGNCC 2 cut(s) 61, 448
SchI GAGTC 2 cut(s) 59, 116
ScrFI CCNGG 2 cut(s) 65, 113
SduI GDGCHC 3 cut(s) 12, 177, 375
SexAI ACCWGGT 1 cut(s) 63
SfaNI GCATC 1 cut(s) 222
SfuI TTCGAA 1 cut(s) 309
SinI GGWCC 2 cut(s) 61, 448
SmiMI CAYNNNNRTG 4 cut(s) 200, 206, 302, 593
Sse9I AATT 3 cut(s) 330, 381, 405
SsiI CCGC 3 cut(s) 181, 190, 456
SspMI CTAG 2 cut(s) 377, 435
SstI GAGCTC 1 cut(s) 12
StyD4I CCNGG 2 cut(s) 63, 111
StyI CCWWGG 4 cut(s) 117, 201, 376, 489
TaaI ACNGT 5 cut(s) 295, 472, 562, 586, 673
TaiI ACGT 1 cut(s) 135
TaqI TCGA 4 cut(s) 84, 171, 309, 665
TasI AATT 3 cut(s) 330, 381, 405
TatI WGTACW 1 cut(s) 714
TauI GCSGC 1 cut(s) 459
TscAI CASTG 3 cut(s) 292, 535, 612
TseFI GTSAC 5 cut(s) 287, 295, 409, 484, 673
TseI GCWGC 2 cut(s) 31, 183
Tsp45I GTSAC 5 cut(s) 287, 295, 409, 484, 673
TspDTI ATGAA 5 cut(s) 224, 292, 362, 650, 792
TspRI CASTG 3 cut(s) 292, 535, 612
Tth111I GACNNNGTC 1 cut(s) 293
Van91I CCANNNNNTGG 1 cut(s) 118
VpaK11BI GGWCC 2 cut(s) 61, 448
XapI RAATTY 2 cut(s) 330, 381
XceI RCATGY 2 cut(s) 199, 226
XcmI CCANNNNNNNNNTGG 1 cut(s) 61
XmaJI CCTAGG 1 cut(s) 376
XmnI GAANNNNTTC 1 cut(s) 641
XspI CTAG 2 cut(s) 377, 435
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.