MD08G1222000.v1.1

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr08
OG0000316
Physical Location & Seq
Reverse (-)
28457842 .. 28462001
4160 bp
Loading structure...
UTR
Exon/CDS
Intron
MD08G1222000.v1.1.491

Sequence Viewer

Length: 1293 bp
ATGCAAAAGCTTCAGAATTATGCGATATTAAATGGTGAAAAAATAGACTTCAAGGATCGAGATACATTTGAGTGCCTATTTAAAGAATATTGGGAAATCATAAGGGAAAACGAAGGTTTGACTTTAGATGATGTCTATTCCGCAGATTTACTGTTAAAGAGGGGAGTAAATAAAACATGCAGGTTTGGTTCTGTAAAAGCTGGTGAGACTGAAGAAGCTATTGACCTGATATCTGATAGTGACACTTCGGACACGGAATTTCAGAGACCGATGGGAAAAAGGAAGGCGCAAGAGTATATCGGATGGGCATCCAAAGCTCTTATTGAGTTCCTGCGATCTATTGGTATAGATACAACCAACAAGTTATCGCAGTATGATGTGGATTCAATCATCTATGATTATATCAAAGAGAGAAACCTTTTTGATCCAATAAAGAAGAAAAAGGTTATATGTGATGAGAAGCTTTATTCTATTTTCCGAAAGAAGTCCCTGGATAGGATAAAAATATATGGTCTTTTGGAGGAACATATGACCGAGAACTTGGTTATATCAGATGAAGATGATAGTGAGCTGGAAGACAAGAAGAATTATACAGTGATAGCAAGCAAGAAGCGAAGAGAGAGCTCAGGTGTTGCATCTATTGAAAAGGAAGCGAGTCCTAGCATCCAGAAAAGTTGTTTTGCATCCATAGTTCCTGAAAATATCAAGCTTGTCTACTTAAGGAGGAGTTTAGTGGAGGAGTTCTTGAAGCAGCCTGAAAACTCTGAAAGCAAGCTACTGGGAACTTTTGTGAGAGTTAAAAATGATGCCAGGCTTCGTCTGACAAATTCTCACCAACTTTTACAAGTTGAAGGCATAAAGAAAGGCTCAACAGCTGATGGAATGGGTGGCGAAATTCTCCTGCAAGTTTCCAATAGAGATATTCCCATTTCTAAGCTGGCAGATTCAGACTTCACTGAGGACGAATGTAAGGAGTTGCGGGAAAATGTGGCAAATGGCCTGCTAAGGAAACCTACAGTTGCCGAGCTTGAACAGAAGGCAAGACTTCTGCATGAGGATATAACTAAGCATTGGATTGAGAGAGAGTTGGTCAGATTACAAAACTGCATTGATCGAGCAAACGAGAAAGGACGGAGAAGAGAATATCCTTCCATAGTCTATACAAAACTTCCAGAGATGCTAAAGCAACCCTCTGTTCAAGTTGGTCTACTAAAGGAGGTGCCAAAGGTCACTGCAGAGGTTTTAGAGGCTGAATCCAGTCCTGTGGATGCCGTAAAAGCTGATAATCAATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Plus-3 SWIB

Protein Analysis

431

Amino Acids

49.3

Weight (kDa)

5.57

Isoelectric Point (pI)

43.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SWIB PF02201 104 - 177 1.2e-12 SWIB/MDM2 domain
Plus-3 PF03126 234 - 330 1.7e-14 Plus-3 domain
NERD_plant PF25980 352 - 398 7.7e-20 Plant NERD 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000316)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G33300
fragaria_vesca FvH4_3g26472 FvH4_5g30650 FvH4_5g30650 FvH4_5g30650 FvH4_5g35240 FvH4_5g35240 FvH4_5g35240 FvH4_5g35240 FvH4_5g35240 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250 FvH4_5g35250
malus_domestica MD08G1198100.v1.1 MD08G1222000.v1.1 MD15G1385400.v1.1 MD15G1440800.v1.1
prunus_persica Prupe.1G532100_v2.0.a1 Prupe.1G559800_v2.0.a1 Prupe.1G559800_v2.0.a1 Prupe.1G559800_v2.0.a1 Prupe.1G559800_v2.0.a1
pyrus_communis pycom08g17030 pycom08g17040 pycom08g19270 pycom08g19280 pycom15g34550 pycom15g36860 pycom15g38860
rosa_chinensis RchiOBHm_Chr6g0258571 RchiOBHm_Chr6g0258581 RchiOBHm_Chr6g0258621 RchiOBHm_Chr7g0225511 RchiOBHm_Chr7g0230561 RchiOBHm_Chr7g0230571 RchiOBHm_Chr7g0236371 RchiOBHm_Chr7g0236391
rosa_laevigata RLG00000001080 RLG00000001810 RLG00000014605
rosa_multiflora Rmu_co8399019.1_g000001 Rmu_sc0002222.1_g000016 Rmu_sc0002449.1_g000032 Rmu_sc0003720.1_g000005 Rmu_sc0005578.1_g000003 Rmu_sc0011035.1_g000002 Rmu_sc0012681.1_g000001 Rmu_sc0023362.1_g000001 Rmu_sc0023858.1_g000001 Rmu_sc0029314.1_g000001
rosa_roxburghii Rroxscaffold_178G00437500 Rroxscaffold_178G00437540 Rroxscaffold_3G00225100 Rroxscaffold_3G00225110 Rroxscaffold_3G00225140 Rroxscaffold_3G00225170 Rroxscaffold_3G00225190 Rroxscaffold_3G00229880 Rroxscaffold_3G00233730 Rroxscaffold_7G00205760 Rroxscaffold_7G00205780 Rroxscaffold_7G00205820 Rroxscaffold_7G00205860
rosa_rugosa Rorug03G0221800 Rorug03G0270500 Rorug05G0313300 Rorug05G0582400 Rorug05G0582500 Rorug07G0230200.1 Rorug07G0230300 Rorug07G0230400 Rorug07G0295100 Rorug07G0296900
rosa_samantha Rh6AG098800 Rh6AG098900 Rh6AG184000 Rh6BG090700 Rh6BG090900 Rh6CG087500 Rh6CG087600 Rh6DG081800 Rh6DG082000 Rh7AG373100 Rh7AG412900 Rh7AG413000 Rh7AG451100 Rh7AG451200 Rh7BG364900 Rh7BG422800 Rh7BG422900 Rh7CG391400 Rh7CG431300 Rh7CG431400 Rh7CG469300 Rh7CG470800 Rh7CG471300 Rh7CG471400 Rh7DG367900 Rh7DG368000 Rh7DG375800 Rh7DG408800 Rh7DG440500 Rh7DG440600
rosa_wichuraiana Rw0G007810 Rw6G008570 Rw6G008580 Rw7G031720 Rw7G034090 Rw7G037500 Rw7G037510 Rw7G037580

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 171
AccB1I GGYRCC 1 cut(s) 1219
AccI GTMKAC 2 cut(s) 714, 1207
AciI CCGC 2 cut(s) 141, 979
AclWI GGATC 2 cut(s) 63, 419
AcsI RAATTY 3 cut(s) 257, 826, 894
AcuI CTGAAG 1 cut(s) 231
AfiI CCNNNNNNNGG 1 cut(s) 495
AflII CTTAAG 1 cut(s) 718
AgsI TTSAA 7 cut(s) 52, 387, 644, 748, 851, 1031, 1199
AjnI CCWGG 2 cut(s) 489, 809
Alw21I GWGCWC 1 cut(s) 626
Alw26I GTCTC 2 cut(s) 200, 259
AlwI GGATC 2 cut(s) 63, 419
AoxI GGCC 1 cut(s) 997
ApeKI GCWGC 1 cut(s) 751
ApoI RAATTY 3 cut(s) 257, 826, 894
AspLEI GCGC 1 cut(s) 289
AsuHPI GGTGA 3 cut(s) 47, 215, 824
BanI GGYRCC 1 cut(s) 1219
BanII GRGCYC 1 cut(s) 626
BbsI GAAGAC 1 cut(s) 582
Bbv12I GWGCWC 1 cut(s) 626
BbvI GCAGC 1 cut(s) 763
BccI CCATC 3 cut(s) 265, 297, 872
BceAI ACGGC 1 cut(s) 1256
BciT130I CCWGG 2 cut(s) 491, 811
BcoDI GTCTC 2 cut(s) 200, 259
BfaI CTAG 1 cut(s) 660
BfmI CTRYAG 2 cut(s) 1014, 1233
BfrI CTTAAG 1 cut(s) 718
BfuAI ACCTGC 1 cut(s) 171
BisI GCNGC 1 cut(s) 752
BlsI GCNGC 1 cut(s) 753
Bme1390I CCNGG 2 cut(s) 491, 811
BmiI GGNNCC 1 cut(s) 1221
BmrFI CCNGG 2 cut(s) 491, 811
BmrI ACTGGG 1 cut(s) 788
BmsI GCATC 7 cut(s) 317, 644, 672, 692, 796, 1167, 1258
BmuI ACTGGG 1 cut(s) 788
BpiI GAAGAC 1 cut(s) 582
Bpu10I CCTNAGC 2 cut(s) 625, 1004
BsaBI GATNNNNATC 1 cut(s) 307
BsaI GGTCTC 1 cut(s) 259
BsaJI CCNNGG 1 cut(s) 489
Bsc4I CCNNNNNNNGG 1 cut(s) 495
Bse1I ACTGG 2 cut(s) 783, 1257
Bse8I GATNNNNATC 1 cut(s) 307
BseBI CCWGG 2 cut(s) 491, 811
BseDI CCNNGG 1 cut(s) 489
BseGI GGATG 5 cut(s) 308, 308, 663, 683, 1273
BseJI GATNNNNATC 1 cut(s) 307
BseLI CCNNNNNNNGG 1 cut(s) 495
BseMII CTCAG 2 cut(s) 639, 948
BseNI ACTGG 2 cut(s) 783, 1257
BseRI GAGGAG 2 cut(s) 739, 752
BseXI GCAGC 1 cut(s) 763
BshFI GGCC 1 cut(s) 999
BshNI GGYRCC 1 cut(s) 1219
BsiHKAI GWGCWC 1 cut(s) 626
BslFI GGGAC 1 cut(s) 472
BslI CCNNNNNNNGG 1 cut(s) 495
BsmAI GTCTC 2 cut(s) 200, 259
BsmFI GGGAC 1 cut(s) 472
BsnI GGCC 1 cut(s) 999
Bso31I GGTCTC 1 cut(s) 259
Bsp1286I GDGCHC 1 cut(s) 626
Bsp143I GATC 4 cut(s) 55, 335, 424, 1111
BspACI CCGC 2 cut(s) 141, 979
BspANI GGCC 1 cut(s) 999
BspCNI CTCAG 2 cut(s) 638, 949
BspLI GGNNCC 1 cut(s) 1221
BspMAI CTGCAG 1 cut(s) 1237
BspMI ACCTGC 1 cut(s) 171
BspPI GGATC 2 cut(s) 63, 419
BspT107I GGYRCC 1 cut(s) 1219
BspTI CTTAAG 1 cut(s) 718
BspTNI GGTCTC 1 cut(s) 259
BsrI ACTGG 2 cut(s) 783, 1257
BssECI CCNNGG 1 cut(s) 489
BssMI GATC 4 cut(s) 55, 335, 424, 1111
Bst2UI CCWGG 2 cut(s) 491, 811
Bst4CI ACNGT 3 cut(s) 153, 595, 1018
Bst6I CTCTTC 2 cut(s) 610, 1132
BstAFI CTTAAG 1 cut(s) 718
BstC8I GCNNGC 4 cut(s) 604, 773, 939, 1001
BstDEI CTNAG 5 cut(s) 625, 933, 957, 1004, 1065
BstF5I GGATG 5 cut(s) 308, 308, 663, 683, 1273
BstHHI GCGC 1 cut(s) 289
BstKTI GATC 4 cut(s) 58, 338, 427, 1114
BstMAI GTCTC 2 cut(s) 200, 259
BstMBI GATC 4 cut(s) 55, 335, 424, 1111
BstMWI GCNNNNNNNGC 2 cut(s) 314, 1277
BstNI CCWGG 2 cut(s) 491, 811
BstNSI RCATGY 1 cut(s) 180
BstSCI CCNGG 2 cut(s) 489, 809
BstSFI CTRYAG 2 cut(s) 1014, 1233
BstV1I GCAGC 1 cut(s) 763
BstV2I GAAGAC 1 cut(s) 582
BstXI CCANNNNNNTGG 1 cut(s) 1264
BsuRI GGCC 1 cut(s) 999
BtsCI GGATG 5 cut(s) 308, 308, 663, 683, 1273
BtsI GCAGTG 1 cut(s) 1230
BtsIMutI CAGTG 3 cut(s) 600, 954, 1230
BveI ACCTGC 1 cut(s) 171
Cac8I GCNNGC 4 cut(s) 604, 773, 939, 1001
CfoI GCGC 1 cut(s) 289
CviAII CATG 2 cut(s) 177, 1052
DdeI CTNAG 5 cut(s) 625, 933, 957, 1004, 1065
DpnI GATC 4 cut(s) 57, 337, 426, 1113
DpnII GATC 4 cut(s) 55, 335, 424, 1111
DraI TTTAAA 1 cut(s) 82
Eam1104I CTCTTC 2 cut(s) 610, 1132
EarI CTCTTC 2 cut(s) 610, 1132
Ecl136II GAGCTC 1 cut(s) 624
Eco24I GRGCYC 1 cut(s) 626
Eco31I GGTCTC 1 cut(s) 259
Eco32I GATATC 1 cut(s) 231
Eco53kI GAGCTC 1 cut(s) 624
Eco57I CTGAAG 1 cut(s) 231
EcoICRI GAGCTC 1 cut(s) 624
EcoRII CCWGG 2 cut(s) 489, 809
EcoRV GATATC 1 cut(s) 231
EcoT38I GRGCYC 1 cut(s) 626
FaeI CATG 2 cut(s) 180, 1055
FaqI GGGAC 1 cut(s) 472
FatI CATG 2 cut(s) 176, 1051
FauI CCCGC 1 cut(s) 972
FauNDI CATATG 1 cut(s) 528
FblI GTMKAC 2 cut(s) 714, 1207
Fnu4HI GCNGC 1 cut(s) 752
FokI GGATG 5 cut(s) 295, 315, 650, 670, 1280
FriOI GRGCYC 1 cut(s) 626
Fsp4HI GCNGC 1 cut(s) 752
FspBI CTAG 1 cut(s) 660
GlaI GCGC 1 cut(s) 288
GluI GCNGC 1 cut(s) 752
HaeIII GGCC 1 cut(s) 999
HhaI GCGC 1 cut(s) 289
Hin1II CATG 2 cut(s) 180, 1055
Hin6I GCGC 1 cut(s) 287
HinP1I GCGC 1 cut(s) 287
HindIII AAGCTT 3 cut(s) 8, 461, 707
HinfI GANTC 4 cut(s) 383, 655, 944, 1253
HphI GGTGA 3 cut(s) 47, 215, 824
Hpy166II GTNNAC 2 cut(s) 715, 1208
Hpy188III TCNNGA 5 cut(s) 59, 667, 695, 745, 1172
Hpy8I GTNNAC 2 cut(s) 715, 1208
HpyAV CCTTC 5 cut(s) 107, 277, 845, 1030, 1158
HpyCH4III ACNGT 3 cut(s) 153, 595, 1018
HpyCH4V TGCA 8 cut(s) 4, 180, 635, 683, 904, 1051, 1107, 1235
HpyF10VI GCNNNNNNNGC 2 cut(s) 314, 1277
HpyF3I CTNAG 5 cut(s) 625, 933, 957, 1004, 1065
Hsp92II CATG 2 cut(s) 180, 1055
HspAI GCGC 1 cut(s) 287
Kzo9I GATC 4 cut(s) 55, 335, 424, 1111
Lsp1109I GCAGC 1 cut(s) 763
LweI GCATC 7 cut(s) 317, 644, 672, 692, 796, 1167, 1258
MaeI CTAG 1 cut(s) 660
MaeIII GTNAC 2 cut(s) 239, 1228
MalI GATC 4 cut(s) 57, 337, 426, 1113
MboI GATC 4 cut(s) 55, 335, 424, 1111
MboII GAAGA 7 cut(s) 224, 448, 569, 587, 595, 627, 1149
MhlI GDGCHC 1 cut(s) 626
MluCI AATT 5 cut(s) 16, 257, 586, 826, 894
MlyI GAGTC 1 cut(s) 664
MseI TTAA 5 cut(s) 29, 81, 155, 719, 798
MslI CAYNNNNRTG 1 cut(s) 70
MspA1I CMGCKG 1 cut(s) 875
MspCI CTTAAG 1 cut(s) 718
MspR9I CCNGG 2 cut(s) 491, 811
MvaI CCWGG 2 cut(s) 491, 811
MwoI GCNNNNNNNGC 2 cut(s) 314, 1277
NdeI CATATG 1 cut(s) 528
NdeII GATC 4 cut(s) 55, 335, 424, 1111
NlaIII CATG 2 cut(s) 180, 1055
NlaIV GGNNCC 1 cut(s) 1221
NmeAIII GCCGAG 1 cut(s) 1048
NmuCI GTSAC 2 cut(s) 239, 1228
NspI RCATGY 1 cut(s) 180
PfeI GAWTC 3 cut(s) 383, 944, 1253
PkrI GCNGC 1 cut(s) 753
PleI GAGTC 1 cut(s) 663
PpsI GAGTC 1 cut(s) 663
Psp124BI GAGCTC 1 cut(s) 626
Psp6I CCWGG 2 cut(s) 489, 809
PspGI CCWGG 2 cut(s) 489, 809
PspN4I GGNNCC 1 cut(s) 1221
PstI CTGCAG 1 cut(s) 1237
PvuII CAGCTG 1 cut(s) 875
RseI CAYNNNNRTG 1 cut(s) 70
SacI GAGCTC 1 cut(s) 626
SaqAI TTAA 5 cut(s) 29, 81, 155, 719, 798
SatI GCNGC 1 cut(s) 752
Sau3AI GATC 4 cut(s) 55, 335, 424, 1111
SchI GAGTC 1 cut(s) 664
ScrFI CCNGG 2 cut(s) 491, 811
SduI GDGCHC 1 cut(s) 626
SfaNI GCATC 7 cut(s) 317, 644, 672, 692, 796, 1167, 1258
SfcI CTRYAG 2 cut(s) 1014, 1233
SmiMI CAYNNNNRTG 1 cut(s) 70
SmlI CTYRAG 1 cut(s) 718
SmoI CTYRAG 1 cut(s) 718
Sse9I AATT 5 cut(s) 16, 257, 586, 826, 894
SsiI CCGC 2 cut(s) 141, 979
SspI AATATT 1 cut(s) 89
SspMI CTAG 1 cut(s) 660
SstI GAGCTC 1 cut(s) 626
StyD4I CCNGG 2 cut(s) 489, 809
TaaI ACNGT 3 cut(s) 153, 595, 1018
TaqI TCGA 2 cut(s) 58, 1114
TaqII GACCGA 2 cut(s) 283, 548
TasI AATT 5 cut(s) 16, 257, 586, 826, 894
TfiI GAWTC 3 cut(s) 383, 944, 1253
Tru1I TTAA 5 cut(s) 29, 81, 155, 719, 798
Tru9I TTAA 5 cut(s) 29, 81, 155, 719, 798
TscAI CASTG 3 cut(s) 600, 961, 1237
TseFI GTSAC 2 cut(s) 239, 1228
TseI GCWGC 1 cut(s) 751
Tsp45I GTSAC 2 cut(s) 239, 1228
TspDTI ATGAA 1 cut(s) 570
TspGWI ACGGA 2 cut(s) 269, 1147
TspRI CASTG 3 cut(s) 600, 961, 1237
Vha464I CTTAAG 1 cut(s) 718
XapI RAATTY 3 cut(s) 257, 826, 894
XceI RCATGY 1 cut(s) 180
XcmI CCANNNNNNNNNTGG 1 cut(s) 934
XmiI GTMKAC 2 cut(s) 714, 1207
XspI CTAG 1 cut(s) 660
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.