MD04G1219900.v1.1

Transcription elongation factor B polypeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0000297
Physical Location & Seq
Reverse (-)
30135744 .. 30136490
747 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1219900.v1.1.491

Sequence Viewer

Length: 747 bp
ATGGCTAATGTGGAAGCAAAAGCAGCAGCTGCTCCTCCGTCTTCGGTGGTTGACTTAATGCGCCGCCATGGCGGGGATGTTAGTGGAATAGATTCCAATCTTCTCGAGAAAATCCTACCGCAGTGCACCGTGGACGAGTTGAGTCGCATAGAGAAGAGTACCGGAGGCAGAGATTTGAGTCCTGTTACCGATAAGCTGTGGCGGAAATTCTACATAGAGGAGTTCGGTGCTTCGATGGCTGATCAGGTGGTCGAAAACATGAAGACCAATACGAACGCCGCATTCAGATGGAAGGAGCTGTTCGAGAAGAAAGTGGAGGAGGTGAACAAGAAAGAAAACAAGGCGGCTGAGAGGTTGAAGAGCCGGTATCAGATGGAAGCGGCTCGAAAAGAGAGCCGACGAGTTGTTATTTGCACAGAGGCGGAAGCTCCGTCTTCAACAGGGAACCACAAAAGAAGGAGAAGCGAGGAGGTTCCGTCATCTCCAAGCAACAAAAGAAGGAGCAGCAGCGGCAGTAATGTTTCTGTACATAAAAAGGCAAGCTTGATCATGAAAAAGGCCAAAAGAGATTTTCTCAACTGTCTTGAGGTAAAAAATCTTGCAGCTGTGGCAATGGCTAAATTGCAGAAGAGTTACCGTTCCAAGAAAGATTCGACATTCAAGCGAAGCGCCATCGTTTCTGAAGATCACGCTCCGAGTTTCGACTCTTGCTCAATACGCAACAGCAGAACTTGCTTGATAGCCTAG
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
Elongin_A

Protein Analysis

249

Amino Acids

27.73

Weight (kDa)

9.74

Isoelectric Point (pI)

78.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Elongin_A PF06881 26 - 134 1.5e-19 RNA polymerase II transcription factor SIII (Elongin) subunit A
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: OG0000297)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G42780 AT2G42780
fragaria_vesca FvH4_6g37640 FvH4_6g37640 FvH4_7g18970 FvH4_7g19430 FvH4_7g20490
malus_domestica MD04G1219900.v1.1 MD09G1156600.v1.1 MD11G1064800.v1.1 MD17G1143100.v1.1
prunus_persica Prupe.3G169700_v2.0.a1 Prupe.3G169700_v2.0.a1 Prupe.3G169700_v2.0.a1 Prupe.3G169700_v2.0.a1
pyrus_communis pycom09g07530 pycom11g05390 pycom12g21760 pycom17g13620
rosa_chinensis RchiOBHm_Chr1g0363261 RchiOBHm_Chr1g0363291 RchiOBHm_Chr1g0363311 RchiOBHm_Chr1g0363471 RchiOBHm_Chr1g0363891 RchiOBHm_Chr1g0377321 RchiOBHm_Chr2g0097481 RchiOBHm_Chr2g0101011 RchiOBHm_Chr2g0137701 RchiOBHm_Chr2g0150641 RchiOBHm_Chr2g0150701 RchiOBHm_Chr3g0476421 RchiOBHm_Chr5g0057921 RchiOBHm_Chr5g0057931 RchiOBHm_Chr5g0057951 RchiOBHm_Chr5g0057981 RchiOBHm_Chr5g0058001 RchiOBHm_Chr5g0058031 RchiOBHm_Chr5g0058051 RchiOBHm_Chr5g0058081 RchiOBHm_Chr5g0058101
rosa_laevigata RLG00000017036 RLG00000019670 RLG00000020502 RLG00000023768 RLG00000027563 RLG00000027575 RLG00000027577 RLG00000027578 RLG00000034860 RLG00000035193
rosa_multiflora Rmu_co8175074.1_g000001 Rmu_sc0000367.1_g000008 Rmu_sc0001862.1_g000004 Rmu_sc0001944.1_g000004 Rmu_sc0002483.1_g000004 Rmu_sc0004027.1_g000010 Rmu_sc0004458.1_g000001 Rmu_sc0004556.1_g000009 Rmu_sc0007226.1_g000008 Rmu_sc0011095.1_g000003 Rmu_sc0027954.1_g000002 Rmu_sc0028722.1_g000001
rosa_roxburghii Rroxscaffold_1G00022510 Rroxscaffold_1G00028200 Rroxscaffold_2G00097050 Rroxscaffold_2G00106910 Rroxscaffold_2G00106930 Rroxscaffold_2G00141650 Rroxscaffold_4G00293150 Rroxscaffold_4G00293320 Rroxscaffold_6G00405280
rosa_rugosa Rorug01G0305900 Rorug01G0306000 Rorug01G0306200 Rorug01G0307100 Rorug01G0307100 Rorug01G0307200 Rorug01G0310800 Rorug01G0402700 Rorug02G0095200 Rorug02G0344100.1 Rorug02G0421900 Rorug02G0422000 Rorug02G0422100 Rorug02G0422200 Rorug03G0154300 Rorug05G0310800 Rorug05G0310900 Rorug05G0337400
rosa_samantha Rh1AG314800 Rh1AG315000 Rh1AG316200 Rh1AG318700 Rh1AG420300 Rh1DG309100 Rh1DG309300 Rh1DG310600 Rh1DG313200 Rh1DG410200 Rh2AG142500 Rh2AG392100 Rh2AG481600 Rh2BG147600 Rh2BG399400 Rh2BG399600 Rh2BG493800 Rh2DG502800 Rh3BG237100 Rh3CG231600 Rh5BG390600 Rh5DG405200
rosa_wichuraiana Rw1G027900 Rw1G027910 Rw1G028000 Rw1G036850 Rw2G011180 Rw2G032110 Rw2G032120 Rw2G039370 Rw2G039510 Rw3G018680 Rw5G035730

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 9 cut(s) 64, 72, 119, 202, 279, 344, 380, 422, 510
AcsI RAATTY 1 cut(s) 206
AcuI CTGAAG 1 cut(s) 702
AfaI GTAC 2 cut(s) 160, 528
AfiI CCNNNNNNNGG 1 cut(s) 73
AgsI TTSAA 3 cut(s) 358, 438, 661
AluBI AGCT 6 cut(s) 29, 196, 298, 428, 543, 605
AluI AGCT 6 cut(s) 29, 196, 298, 428, 543, 605
Alw21I GWGCWC 1 cut(s) 128
Alw44I GTGCAC 1 cut(s) 124
AlwNI CAGNNNCTG 1 cut(s) 29
Ama87I CYCGRG 1 cut(s) 104
AoxI GGCC 1 cut(s) 558
ApaLI GTGCAC 1 cut(s) 124
ApeKI GCWGC 6 cut(s) 23, 26, 29, 504, 507, 602
ApoI RAATTY 1 cut(s) 206
Asp700I GAANNNNTTC 1 cut(s) 91
AspLEI GCGC 2 cut(s) 63, 671
AsuHPI GGTGA 1 cut(s) 334
AvaI CYCGRG 1 cut(s) 104
BaeGI GKGCMC 1 cut(s) 128
BbsI GAAGAC 3 cut(s) 33, 269, 426
Bbv12I GWGCWC 1 cut(s) 128
BbvI GCAGC 6 cut(s) 16, 35, 38, 516, 519, 614
BccI CCATC 4 cut(s) 229, 282, 367, 680
BclI TGATCA 2 cut(s) 241, 546
BfaI CTAG 1 cut(s) 745
BfoI RGCGCY 1 cut(s) 672
BglI GCCNNNNNGGC 1 cut(s) 69
BmeT110I CYCGRG 1 cut(s) 104
BmiI GGNNCC 2 cut(s) 446, 474
BpiI GAAGAC 3 cut(s) 33, 269, 426
BplI GAGNNNNNCTC 2 cut(s) 558, 590
BpuEI CTTGAG 1 cut(s) 605
BsaBI GATNNNNATC 1 cut(s) 96
BsaJI CCNNGG 2 cut(s) 67, 129
BsaWI WCCGGW 1 cut(s) 161
BsaXI ACNNNNNCTCC 2 cut(s) 461, 491
Bsc4I CCNNNNNNNGG 1 cut(s) 73
Bse118I RCCGGY 1 cut(s) 363
Bse3DI GCAATG 1 cut(s) 618
Bse8I GATNNNNATC 1 cut(s) 96
BseDI CCNNGG 2 cut(s) 67, 129
BseGI GGATG 1 cut(s) 82
BseJI GATNNNNATC 1 cut(s) 96
BseLI CCNNNNNNNGG 1 cut(s) 73
BseMI GCAATG 1 cut(s) 618
BseMII CTCAG 1 cut(s) 339
BseRI GAGGAG 4 cut(s) 24, 233, 332, 482
BseSI GKGCMC 1 cut(s) 128
BseXI GCAGC 6 cut(s) 16, 35, 38, 516, 519, 614
BshFI GGCC 1 cut(s) 560
BsiHKAI GWGCWC 1 cut(s) 128
BsiHKCI CYCGRG 1 cut(s) 104
BsiSI CCGG 2 cut(s) 162, 364
BslI CCNNNNNNNGG 1 cut(s) 73
BsmI GAATGC 1 cut(s) 281
BsnI GGCC 1 cut(s) 560
BsoBI CYCGRG 1 cut(s) 104
Bsp1286I GDGCHC 1 cut(s) 128
Bsp1407I TGTACA 1 cut(s) 526
Bsp143I GATC 3 cut(s) 241, 546, 685
Bsp19I CCATGG 1 cut(s) 67
BspACI CCGC 9 cut(s) 64, 72, 119, 202, 279, 344, 380, 422, 510
BspANI GGCC 1 cut(s) 560
BspCNI CTCAG 1 cut(s) 340
BspHI TCATGA 1 cut(s) 549
BspLI GGNNCC 2 cut(s) 446, 474
BspQI GCTCTTC 1 cut(s) 353
BsrDI GCAATG 1 cut(s) 618
BsrFI RCCGGY 1 cut(s) 363
BsrGI TGTACA 1 cut(s) 526
BssAI RCCGGY 1 cut(s) 363
BssECI CCNNGG 2 cut(s) 67, 129
BssMI GATC 3 cut(s) 241, 546, 685
BssT1I CCWWGG 1 cut(s) 67
Bst4CI ACNGT 3 cut(s) 130, 581, 638
Bst6I CTCTTC 3 cut(s) 149, 353, 623
BstAPI GCANNNNNTGC 2 cut(s) 29, 732
BstAUI TGTACA 1 cut(s) 526
BstC8I GCNNGC 1 cut(s) 541
BstDEI CTNAG 1 cut(s) 348
BstDSI CCRYGG 2 cut(s) 67, 129
BstF5I GGATG 1 cut(s) 82
BstH2I RGCGCY 1 cut(s) 672
BstHHI GCGC 2 cut(s) 63, 671
BstKTI GATC 3 cut(s) 244, 549, 688
BstMBI GATC 3 cut(s) 241, 546, 685
BstMWI GCNNNNNNNGC 8 cut(s) 23, 29, 69, 236, 510, 608, 717, 732
BstSLI GKGCMC 1 cut(s) 128
BstV1I GCAGC 6 cut(s) 16, 35, 38, 516, 519, 614
BstV2I GAAGAC 3 cut(s) 33, 269, 426
BsuRI GGCC 1 cut(s) 560
BtgI CCRYGG 2 cut(s) 67, 129
BtsCI GGATG 1 cut(s) 82
BtsI GCAGTG 1 cut(s) 128
BtsIMutI CAGTG 1 cut(s) 128
Cac8I GCNNGC 1 cut(s) 541
CaiI CAGNNNCTG 1 cut(s) 29
CciI TCATGA 1 cut(s) 549
CfoI GCGC 2 cut(s) 63, 671
Cfr10I RCCGGY 1 cut(s) 363
Csp6I GTAC 2 cut(s) 159, 527
CviAII CATG 3 cut(s) 68, 259, 550
CviQI GTAC 2 cut(s) 159, 527
DdeI CTNAG 1 cut(s) 348
DpnI GATC 3 cut(s) 243, 548, 687
DpnII GATC 3 cut(s) 241, 546, 685
Eam1104I CTCTTC 3 cut(s) 149, 353, 623
EarI CTCTTC 3 cut(s) 149, 353, 623
EciI GGCGGA 2 cut(s) 217, 437
Eco130I CCWWGG 1 cut(s) 67
Eco57I CTGAAG 1 cut(s) 702
Eco88I CYCGRG 1 cut(s) 104
EcoT14I CCWWGG 1 cut(s) 67
ErhI CCWWGG 1 cut(s) 67
FaeI CATG 3 cut(s) 71, 262, 553
FaiI YATR 6 cut(s) 69, 149, 215, 260, 531, 551
FalI AAGNNNNNCTT 2 cut(s) 527, 559
FatI CATG 3 cut(s) 67, 258, 549
FauI CCCGC 1 cut(s) 65
FbaI TGATCA 2 cut(s) 241, 546
FokI GGATG 1 cut(s) 89
FspBI CTAG 1 cut(s) 745
GlaI GCGC 2 cut(s) 62, 670
HaeII RGCGCY 1 cut(s) 672
HaeIII GGCC 1 cut(s) 560
HapII CCGG 2 cut(s) 162, 364
HhaI GCGC 2 cut(s) 63, 671
Hin1II CATG 3 cut(s) 71, 262, 553
Hin6I GCGC 2 cut(s) 61, 669
HinP1I GCGC 2 cut(s) 61, 669
HincII GTYRAC 1 cut(s) 52
HindII GTYRAC 1 cut(s) 52
HindIII AAGCTT 1 cut(s) 541
HinfI GANTC 5 cut(s) 92, 142, 178, 650, 704
HpaII CCGG 2 cut(s) 162, 364
HphI GGTGA 1 cut(s) 334
Hpy166II GTNNAC 4 cut(s) 52, 126, 133, 325
Hpy188I TCNGA 4 cut(s) 287, 372, 682, 696
Hpy188III TCNNGA 5 cut(s) 104, 106, 304, 550, 584
Hpy8I GTNNAC 4 cut(s) 52, 126, 133, 325
Hpy99I CGWCG 1 cut(s) 402
HpyAV CCTTC 3 cut(s) 286, 450, 492
HpyCH4III ACNGT 3 cut(s) 130, 581, 638
HpyCH4V TGCA 4 cut(s) 126, 414, 602, 625
HpyF10VI GCNNNNNNNGC 8 cut(s) 23, 29, 69, 236, 510, 608, 717, 732
HpyF3I CTNAG 1 cut(s) 348
Hsp92II CATG 3 cut(s) 71, 262, 553
HspAI GCGC 2 cut(s) 61, 669
Ksp22I TGATCA 2 cut(s) 241, 546
Kzo9I GATC 3 cut(s) 241, 546, 685
LguI GCTCTTC 1 cut(s) 353
LmnI GCTCC 5 cut(s) 37, 295, 433, 501, 697
LpnPI CCDG 5 cut(s) 175, 195, 230, 377, 426
Lsp1109I GCAGC 6 cut(s) 16, 35, 38, 516, 519, 614
MaeI CTAG 1 cut(s) 745
MaeIII GTNAC 2 cut(s) 184, 632
MalI GATC 3 cut(s) 243, 548, 687
MboI GATC 3 cut(s) 241, 546, 685
MboII GAAGA 9 cut(s) 33, 92, 166, 274, 319, 370, 426, 640, 695
MhlI GDGCHC 1 cut(s) 128
MluCI AATT 2 cut(s) 206, 620
MlyI GAGTC 3 cut(s) 151, 187, 698
MroXI GAANNNNTTC 1 cut(s) 91
MseI TTAA 1 cut(s) 56
MslI CAYNNNNRTG 1 cut(s) 286
MspA1I CMGCKG 3 cut(s) 29, 510, 605
MspI CCGG 2 cut(s) 162, 364
Mva1269I GAATGC 1 cut(s) 281
MwoI GCNNNNNNNGC 8 cut(s) 23, 29, 69, 236, 510, 608, 717, 732
NcoI CCATGG 1 cut(s) 67
NdeII GATC 3 cut(s) 241, 546, 685
NlaIII CATG 3 cut(s) 71, 262, 553
NlaIV GGNNCC 2 cut(s) 446, 474
PaeR7I CTCGAG 1 cut(s) 104
PagI TCATGA 1 cut(s) 549
PciSI GCTCTTC 1 cut(s) 353
PctI GAATGC 1 cut(s) 281
PdmI GAANNNNTTC 1 cut(s) 91
PfeI GAWTC 2 cut(s) 92, 650
PleI GAGTC 3 cut(s) 150, 186, 698
PpsI GAGTC 3 cut(s) 150, 186, 698
PspN4I GGNNCC 2 cut(s) 446, 474
PstNI CAGNNNCTG 1 cut(s) 29
PvuII CAGCTG 2 cut(s) 29, 605
RsaI GTAC 2 cut(s) 160, 528
RsaNI GTAC 2 cut(s) 159, 527
RseI CAYNNNNRTG 1 cut(s) 286
SapI GCTCTTC 1 cut(s) 353
SaqAI TTAA 1 cut(s) 56
Sau3AI GATC 3 cut(s) 241, 546, 685
SchI GAGTC 3 cut(s) 151, 187, 698
SduI GDGCHC 1 cut(s) 128
Sfr274I CTCGAG 1 cut(s) 104
SlaI CTCGAG 1 cut(s) 104
SmiMI CAYNNNNRTG 1 cut(s) 286
SmlI CTYRAG 2 cut(s) 104, 584
SmoI CTYRAG 2 cut(s) 104, 584
Sse9I AATT 2 cut(s) 206, 620
SsiI CCGC 9 cut(s) 64, 72, 119, 202, 279, 344, 380, 422, 510
SspMI CTAG 1 cut(s) 745
StyI CCWWGG 1 cut(s) 67
TaaI ACNGT 3 cut(s) 130, 581, 638
TaqI TCGA 7 cut(s) 105, 233, 252, 303, 385, 653, 702
TasI AATT 2 cut(s) 206, 620
TatI WGTACW 1 cut(s) 526
TauI GCSGC 5 cut(s) 66, 281, 347, 383, 513
TfiI GAWTC 2 cut(s) 92, 650
Tru1I TTAA 1 cut(s) 56
Tru9I TTAA 1 cut(s) 56
TscAI CASTG 1 cut(s) 128
TseI GCWGC 6 cut(s) 23, 26, 29, 504, 507, 602
TspDTI ATGAA 2 cut(s) 275, 566
TspGWI ACGGA 3 cut(s) 27, 420, 465
TspRI CASTG 1 cut(s) 128
VneI GTGCAC 1 cut(s) 124
XapI RAATTY 1 cut(s) 206
XhoI CTCGAG 1 cut(s) 104
XmnI GAANNNNTTC 1 cut(s) 91
XspI CTAG 1 cut(s) 745
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.