MD11G1270700.v1.1

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0017501
Physical Location & Seq
Reverse (-)
38618746 .. 38624536
5791 bp
Loading structure...
UTR
Exon/CDS
Intron
MD11G1270700.v1.1.491

Sequence Viewer

Length: 1038 bp
ATGCTTCTTGGATTTTGGATTGAATATAATATAGGTTGTAGTGGTGCTGCTCGTGTTGCCCGCAGAGGCCTTGCTGCACCTCCTGGTGTCCGCAGAGGACCGCCTCCTGGTGTCCGCAGAGTACCCCCTCCTGGTGTCCGCAGAGTACCCCCTCCTGGTGTCCGCAGAGTACCACCTCCTGGTGTCCGCAGAGTACCACCTCCTGGTGTCCGCAGAAGACCACCTCCTGGTGACTTCAGAAGACCTCCTGGTGACTTCAGAAGACCACATCCTGGTGACCGCAGAAGACGGCCAGCACCTGGTGGAGGTGGAAACAAAGGAATTATCACCCCATATGGTGTGCATGAAGGGGTTTTCAAACATACGTCTATTAAAGGCGATGCTCTCGTCACTAAAAACATGGTCCCTGGTGAATCTGTTTATAATGAGAAGCGCATCTCCGTTCAGAATGAAGATGGAACCAAGGTGGAATATAGGGTTTGGAACCCGTTTCGTTCAAAGCTGGGAGCTGCAATCTTGGCGGGCATTGACATCATTGGGATTAAACCGGGAGCTCGAGTTCTCTACCTAGGAGCTGCTTCAGGAACCTCTGTTTCTCATGTATCCGACATCGTTGGACCTACTGGAGTGGTGTATGCGGTCGAATTTTCCCCTAGGAGTGGTAGGGACTTGGTAAACATGGCAAAGAAGAGAACTAATGTCATACCAATTATTGAAGACGCAAGACACCCAGCAAGATATCGGATGCTTGTCAGCGTGGTAGATGTCATATTTACAGATGTTGCTCAGCCTGATCAGGCAAGGATTTTAGGTTTGAATGCAAAATATTTCCTCAAAATAGGAGGTTGTTGTTTGATGTCAATCAAGGCAAATTGCATAGACTCCACTCTACCTGCTGAGAAAGTTTATGAACTTGAAGTGGAAAGAATGACGGCAGAACAGGTGAAGCCTAAACAAAGGGTGACACTTGAGCCATTTGAACGTGACCATGCTTGCGTAGTTGGTGGCTACCGAATGCCAATCAAGATACAAAAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03008 map03008
Pfam Domains
Protein Families
Fibrillarin

Protein Analysis

346

Amino Acids

37.73

Weight (kDa)

10.48

Isoelectric Point (pI)

58.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Fibrillarin PF01269 114 - 338 1.5e-100 Fibrillarin
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: OG0017501)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G52490
malus_domestica MD11G1270700.v1.1
rosa_chinensis RchiOBHm_Chr2g0166961
rosa_laevigata RLG00000021684
rosa_multiflora Rmu_sc0002735.1_g000024 Rmu_sc0005344.1_g000013
rosa_rugosa Rorug02G0526900
rosa_samantha Rh2AG593800 Rh2BG605300 Rh2CG576200 Rh2DG616800
rosa_wichuraiana Rw2G049440

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 423
Acc36I ACCTGC 1 cut(s) 901
AccB7I CCANNNNNTGG 5 cut(s) 179, 203, 227, 272, 299
AcoI YGGCCR 1 cut(s) 290
AcsI RAATTY 1 cut(s) 644
AcuI CTGAAG 3 cut(s) 220, 241, 564
AdeI CACNNNGTG 1 cut(s) 302
AfaI GTAC 4 cut(s) 123, 147, 171, 195
AgsI TTSAA 7 cut(s) 23, 358, 498, 716, 817, 917, 980
AloI GAACNNNNNNTCC 2 cut(s) 543, 575
AluBI AGCT 4 cut(s) 502, 509, 554, 575
AluI AGCT 4 cut(s) 502, 509, 554, 575
Alw21I GWGCWC 1 cut(s) 556
AlwNI CAGNNNCTG 1 cut(s) 299
Ama87I CYCGRG 1 cut(s) 555
AoxI GGCC 2 cut(s) 67, 290
ApeKI GCWGC 4 cut(s) 47, 74, 509, 575
ApoI RAATTY 1 cut(s) 644
AspA2I CCTAGG 2 cut(s) 568, 653
AspLEI GCGC 1 cut(s) 435
AspS9I GGNCC 3 cut(s) 98, 403, 617
AsuC2I CCSGG 1 cut(s) 549
AsuHPI GGTGA 7 cut(s) 242, 263, 287, 319, 422, 955, 973
AvaI CYCGRG 1 cut(s) 555
AvaII GGWCC 3 cut(s) 98, 403, 617
AvrII CCTAGG 2 cut(s) 568, 653
BanII GRGCYC 1 cut(s) 556
BauI CACGAG 1 cut(s) 51
BbsI GAAGAC 5 cut(s) 223, 247, 268, 292, 723
Bbv12I GWGCWC 1 cut(s) 556
BbvI GCAGC 4 cut(s) 34, 61, 496, 562
BccI CCATC 1 cut(s) 449
BceAI ACGGC 2 cut(s) 305, 948
BciVI GTATCC 1 cut(s) 613
BclI TGATCA 1 cut(s) 793
BcnI CCSGG 1 cut(s) 549
BfaI CTAG 2 cut(s) 569, 654
BfuAI ACCTGC 1 cut(s) 901
BfuI GTATCC 1 cut(s) 613
BisI GCNGC 4 cut(s) 48, 75, 510, 576
BlnI CCTAGG 2 cut(s) 568, 653
BlpI GCTNAGC 1 cut(s) 786
BlsI GCNGC 4 cut(s) 49, 76, 511, 577
Bme18I GGWCC 3 cut(s) 98, 403, 617
BmeT110I CYCGRG 1 cut(s) 555
BmgT120I GGNCC 3 cut(s) 98, 403, 617
BmiI GGNNCC 4 cut(s) 405, 460, 485, 586
BmsI GCATC 3 cut(s) 370, 444, 735
BpiI GAAGAC 5 cut(s) 223, 247, 268, 292, 723
BpmI CTGGAG 1 cut(s) 645
Bpu1102I GCTNAGC 1 cut(s) 786
BpuEI CTTGAG 1 cut(s) 989
BpuMI CCSGG 1 cut(s) 549
BsaBI GATNNNNATC 1 cut(s) 860
BsaJI CCNNGG 4 cut(s) 406, 462, 568, 653
BsaXI ACNNNNNCTCC 2 cut(s) 543, 573
Bse1I ACTGG 1 cut(s) 628
Bse8I GATNNNNATC 1 cut(s) 860
BseDI CCNNGG 4 cut(s) 406, 462, 568, 653
BseGI GGATG 2 cut(s) 268, 750
BseJI GATNNNNATC 1 cut(s) 860
BseMII CTCAG 2 cut(s) 800, 888
BseNI ACTGG 1 cut(s) 628
BseXI GCAGC 4 cut(s) 34, 61, 496, 562
BseYI CCCAGC 2 cut(s) 502, 730
BsgI GTGCAG 1 cut(s) 60
Bsh1285I CGRYCG 1 cut(s) 642
BshFI GGCC 2 cut(s) 69, 292
BsiEI CGRYCG 1 cut(s) 642
BsiHKAI GWGCWC 1 cut(s) 556
BsiHKCI CYCGRG 1 cut(s) 555
BsiSI CCGG 1 cut(s) 548
BslFI GGGAC 2 cut(s) 389, 680
BsmFI GGGAC 2 cut(s) 389, 680
BsmI GAATGC 2 cut(s) 823, 1020
BsnI GGCC 2 cut(s) 69, 292
BsoBI CYCGRG 1 cut(s) 555
Bsp1286I GDGCHC 1 cut(s) 556
Bsp143I GATC 1 cut(s) 793
Bsp1720I GCTNAGC 1 cut(s) 786
BspANI GGCC 2 cut(s) 69, 292
BspCNI CTCAG 2 cut(s) 799, 889
BspLI GGNNCC 4 cut(s) 405, 460, 485, 586
BspMI ACCTGC 1 cut(s) 901
BsrI ACTGG 1 cut(s) 628
BssECI CCNNGG 4 cut(s) 406, 462, 568, 653
BssMI GATC 1 cut(s) 793
BssSI CACGAG 1 cut(s) 51
BssT1I CCWWGG 3 cut(s) 462, 568, 653
Bst2BI CACGAG 1 cut(s) 51
Bst6I CTCTTC 1 cut(s) 683
BstC8I GCNNGC 4 cut(s) 61, 294, 523, 994
BstDEI CTNAG 2 cut(s) 786, 897
BstEII GGTNACC 1 cut(s) 275
BstENI CCTNNNNNAGG 1 cut(s) 303
BstF5I GGATG 2 cut(s) 268, 750
BstHHI GCGC 1 cut(s) 435
BstKTI GATC 1 cut(s) 796
BstMBI GATC 1 cut(s) 793
BstMCI CGRYCG 1 cut(s) 642
BstMWI GCNNNNNNNGC 2 cut(s) 56, 518
BstPI GGTNACC 1 cut(s) 275
BstV1I GCAGC 4 cut(s) 34, 61, 496, 562
BstV2I GAAGAC 5 cut(s) 223, 247, 268, 292, 723
BsuI GTATCC 1 cut(s) 613
BsuRI GGCC 2 cut(s) 69, 292
BtgZI GCGATG 1 cut(s) 393
BtsCI GGATG 2 cut(s) 268, 750
BveI ACCTGC 1 cut(s) 901
Cac8I GCNNGC 4 cut(s) 61, 294, 523, 994
CaiI CAGNNNCTG 1 cut(s) 299
CfoI GCGC 1 cut(s) 435
Cfr13I GGNCC 3 cut(s) 98, 403, 617
CseI GACGC 1 cut(s) 728
CsiI ACCWGGT 1 cut(s) 298
Csp6I GTAC 4 cut(s) 122, 146, 170, 194
CviAII CATG 5 cut(s) 344, 400, 599, 679, 989
CviQI GTAC 4 cut(s) 122, 146, 170, 194
DdeI CTNAG 2 cut(s) 786, 897
DpnI GATC 1 cut(s) 795
DpnII GATC 1 cut(s) 793
DraIII CACNNNGTG 1 cut(s) 302
EaeI YGGCCR 1 cut(s) 290
Eam1104I CTCTTC 1 cut(s) 683
EarI CTCTTC 1 cut(s) 683
Ecl136II GAGCTC 1 cut(s) 554
Eco130I CCWWGG 3 cut(s) 462, 568, 653
Eco147I AGGCCT 1 cut(s) 69
Eco24I GRGCYC 1 cut(s) 556
Eco32I GATATC 1 cut(s) 740
Eco47I GGWCC 3 cut(s) 98, 403, 617
Eco53kI GAGCTC 1 cut(s) 554
Eco57I CTGAAG 3 cut(s) 220, 241, 564
Eco88I CYCGRG 1 cut(s) 555
Eco91I GGTNACC 1 cut(s) 275
EcoICRI GAGCTC 1 cut(s) 554
EcoNI CCTNNNNNAGG 1 cut(s) 303
EcoO65I GGTNACC 1 cut(s) 275
EcoRV GATATC 1 cut(s) 740
EcoT14I CCWWGG 3 cut(s) 462, 568, 653
EcoT38I GRGCYC 1 cut(s) 556
ErhI CCWWGG 3 cut(s) 462, 568, 653
FaeI CATG 5 cut(s) 347, 403, 602, 682, 992
FaqI GGGAC 2 cut(s) 389, 680
FatI CATG 5 cut(s) 343, 399, 598, 678, 988
FauI CCCGC 2 cut(s) 68, 514
FauNDI CATATG 1 cut(s) 334
FbaI TGATCA 1 cut(s) 793
Fnu4HI GCNGC 4 cut(s) 48, 75, 510, 576
FokI GGATG 2 cut(s) 255, 757
FriOI GRGCYC 1 cut(s) 556
Fsp4HI GCNGC 4 cut(s) 48, 75, 510, 576
FspBI CTAG 2 cut(s) 569, 654
GlaI GCGC 1 cut(s) 434
GluI GCNGC 4 cut(s) 48, 75, 510, 576
GsaI CCCAGC 2 cut(s) 506, 734
GsuI CTGGAG 1 cut(s) 645
HaeIII GGCC 2 cut(s) 69, 292
HapII CCGG 1 cut(s) 548
HgaI GACGC 1 cut(s) 728
HhaI GCGC 1 cut(s) 435
Hin1II CATG 5 cut(s) 347, 403, 602, 682, 992
Hin6I GCGC 1 cut(s) 433
HinP1I GCGC 1 cut(s) 433
HinfI GANTC 2 cut(s) 413, 881
HpaII CCGG 1 cut(s) 548
HphI GGTGA 7 cut(s) 242, 263, 287, 319, 422, 955, 973
Hpy166II GTNNAC 1 cut(s) 676
Hpy188I TCNGA 5 cut(s) 239, 260, 447, 607, 744
Hpy188III TCNNGA 2 cut(s) 582, 1024
Hpy8I GTNNAC 1 cut(s) 676
HpyAV CCTTC 1 cut(s) 341
HpyCH4IV ACGT 2 cut(s) 365, 982
HpyCH4V TGCA 5 cut(s) 77, 343, 512, 821, 876
HpyF10VI GCNNNNNNNGC 2 cut(s) 56, 518
HpyF3I CTNAG 2 cut(s) 786, 897
HpySE526I ACGT 2 cut(s) 365, 982
Hsp92II CATG 5 cut(s) 347, 403, 602, 682, 992
HspAI GCGC 1 cut(s) 433
Ksp22I TGATCA 1 cut(s) 793
Kzo9I GATC 1 cut(s) 793
LmnI GCTCC 3 cut(s) 506, 551, 572
Lsp1109I GCAGC 4 cut(s) 34, 61, 496, 562
LweI GCATC 3 cut(s) 370, 444, 735
MabI ACCWGGT 1 cut(s) 298
MaeI CTAG 2 cut(s) 569, 654
MaeII ACGT 2 cut(s) 365, 982
MaeIII GTNAC 6 cut(s) 230, 251, 275, 388, 961, 983
MalI GATC 1 cut(s) 795
MboI GATC 1 cut(s) 793
MboII GAAGA 7 cut(s) 228, 252, 273, 297, 464, 700, 728
MhlI GDGCHC 1 cut(s) 556
MluCI AATT 4 cut(s) 321, 644, 708, 871
MlyI GAGTC 1 cut(s) 875
MmeI TCCRAC 2 cut(s) 595, 630
MseI TTAA 2 cut(s) 372, 543
MslI CAYNNNNRTG 1 cut(s) 273
MspI CCGG 1 cut(s) 548
Mva1269I GAATGC 2 cut(s) 823, 1020
MwoI GCNNNNNNNGC 2 cut(s) 56, 518
NciI CCSGG 1 cut(s) 549
NdeI CATATG 1 cut(s) 334
NdeII GATC 1 cut(s) 793
NlaIII CATG 5 cut(s) 347, 403, 602, 682, 992
NlaIV GGNNCC 4 cut(s) 405, 460, 485, 586
NmuCI GTSAC 6 cut(s) 230, 251, 275, 388, 961, 983
PaeR7I CTCGAG 1 cut(s) 555
PceI AGGCCT 1 cut(s) 69
PctI GAATGC 2 cut(s) 823, 1020
PfeI GAWTC 1 cut(s) 413
PflMI CCANNNNNTGG 5 cut(s) 179, 203, 227, 272, 299
PkrI GCNGC 4 cut(s) 49, 76, 511, 577
PleI GAGTC 1 cut(s) 875
PpsI GAGTC 1 cut(s) 875
PsiI TTATAA 1 cut(s) 423
Psp124BI GAGCTC 1 cut(s) 556
PspEI GGTNACC 1 cut(s) 275
PspFI CCCAGC 2 cut(s) 502, 730
PspN4I GGNNCC 4 cut(s) 405, 460, 485, 586
PspPI GGNCC 3 cut(s) 98, 403, 617
PspXI VCTCGAGB 1 cut(s) 555
PstNI CAGNNNCTG 1 cut(s) 299
RsaI GTAC 4 cut(s) 123, 147, 171, 195
RsaNI GTAC 4 cut(s) 122, 146, 170, 194
RseI CAYNNNNRTG 1 cut(s) 273
SacI GAGCTC 1 cut(s) 556
SaqAI TTAA 2 cut(s) 372, 543
SatI GCNGC 4 cut(s) 48, 75, 510, 576
Sau3AI GATC 1 cut(s) 793
Sau96I GGNCC 3 cut(s) 98, 403, 617
SchI GAGTC 1 cut(s) 875
SduI GDGCHC 1 cut(s) 556
SexAI ACCWGGT 1 cut(s) 298
SfaNI GCATC 3 cut(s) 370, 444, 735
Sfr274I CTCGAG 1 cut(s) 555
SinI GGWCC 3 cut(s) 98, 403, 617
SlaI CTCGAG 1 cut(s) 555
SmiMI CAYNNNNRTG 1 cut(s) 273
SmlI CTYRAG 2 cut(s) 555, 968
SmoI CTYRAG 2 cut(s) 555, 968
Sse9I AATT 4 cut(s) 321, 644, 708, 871
SseBI AGGCCT 1 cut(s) 69
SspI AATATT 1 cut(s) 827
SspMI CTAG 2 cut(s) 569, 654
SstI GAGCTC 1 cut(s) 556
StuI AGGCCT 1 cut(s) 69
StyI CCWWGG 3 cut(s) 462, 568, 653
TaiI ACGT 2 cut(s) 368, 985
TaqI TCGA 2 cut(s) 556, 642
TasI AATT 4 cut(s) 321, 644, 708, 871
TfiI GAWTC 1 cut(s) 413
Tru1I TTAA 2 cut(s) 372, 543
Tru9I TTAA 2 cut(s) 372, 543
TseFI GTSAC 6 cut(s) 230, 251, 275, 388, 961, 983
TseI GCWGC 4 cut(s) 47, 74, 509, 575
Tsp45I GTSAC 6 cut(s) 230, 251, 275, 388, 961, 983
TspDTI ATGAA 3 cut(s) 360, 465, 924
TspGWI ACGGA 1 cut(s) 430
Van91I CCANNNNNTGG 5 cut(s) 179, 203, 227, 272, 299
VpaK11BI GGWCC 3 cut(s) 98, 403, 617
XagI CCTNNNNNAGG 1 cut(s) 303
XapI RAATTY 1 cut(s) 644
XhoI CTCGAG 1 cut(s) 555
XmaJI CCTAGG 2 cut(s) 568, 653
XspI CTAG 2 cut(s) 569, 654
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.