Rh5BG520400

Mediator of RNA polymerase II transcription subunit 15a-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0000315
Physical Location & Seq
Forward (+)
82260114 .. 82265192
5079 bp
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UTR
Exon/CDS
Intron
Rh5BG520400.1

Sequence Viewer

Length: 420 bp
ATGGATATCAATATCGATACTGAGATGCATCTGCAAGGTGGAGAACCCTTGATGGTCTCCGTCGATTGGCGTAGCTACTTGATGCCAGAATCACGAGAAATGGCCTCCACAGGGTGGAGAAGCCTTGAATGGCGCCGGCGATTGGAGAATCTACTTGATGCCAGATTCAAGGCAAAGAATTGTCAGAAGATAACTGATGTGTTGAAGAGGCATCTTCCCTTCTCTGGCCAAGAGGGGTTACTTGAACGGCAGAGAATTGCTGCAAGGTTCGAGGATAAGTTGTATGCTACTGCATCAAGCCAGTCAGATTATCTACGAAAAATTTCTCTGAAGTTGCTTGCCATTGAGACCTCGGGAGTTGCAACAAGTCCCCCCTCCAACCTGAAACGGCATCGTGCCCTTGCTTTTGAAAGAGACTAA
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
KIX_2

Protein Analysis

139

Amino Acids

16.09

Weight (kDa)

9.41

Isoelectric Point (pI)

68.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KIX_2 PF16987 53 - 118 2.2e-20 KIX 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: OG0000315)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G15790 AT1G15790 AT1G15790 AT1G15790 AT1G15790
fragaria_vesca FvH4_3g12350 FvH4_3g37483 FvH4_3g42320 FvH4_3g42330 FvH4_3g42330 FvH4_3g42330 FvH4_3g42330 FvH4_3g42330 FvH4_3g42361
malus_domestica MD03G1031600.v1.1 MD03G1031700.v1.1 MD03G1033500.v1.1 MD07G1261500.v1.1 MD11G1035800.v1.1
prunus_persica Prupe.6G027700_v2.0.a1 Prupe.6G027700_v2.0.a1 Prupe.6G027700_v2.0.a1 Prupe.6G027700_v2.0.a1 Prupe.6G027700_v2.0.a1 Prupe.6G027700_v2.0.a1 Prupe.6G027700_v2.0.a1
pyrus_communis pycom03g02570 pycom03g02580
rosa_chinensis RchiOBHm_Chr4g0419101 RchiOBHm_Chr5g0075711 RchiOBHm_Chr5g0075731 RchiOBHm_Chr5g0075781 RchiOBHm_Chr5g0075801 RchiOBHm_Chr5g0075811 RchiOBHm_Chr5g0075831 RchiOBHm_Chr5g0075841 RchiOBHm_Chr5g0075851 RchiOBHm_Chr5g0075861
rosa_laevigata RLG00000029834 RLG00000036588 RLG00000036591 RLG00000036592 RLG00000036594 RLG00000036595 RLG00000036597 RLG00000036647
rosa_multiflora Rmu_co8127406.1_g000001 Rmu_co8138284.1_g000001 Rmu_sc0002101.1_g000001 Rmu_sc0002101.1_g000006 Rmu_sc0002652.1_g000027 Rmu_sc0002652.1_g000029 Rmu_sc0008562.1_g000002 Rmu_sc0019599.1_g000001 Rmu_sc0019861.1_g000005 Rmu_sc0029317.1_g000001 Rmu_sc0031378.1_g000001 Rmu_ssc0000402.1_g000001
rosa_roxburghii Rroxscaffold_1G00005820 Rroxscaffold_1G00005830 Rroxscaffold_1G00005840 Rroxscaffold_1G00005850 Rroxscaffold_1G00005860 Rroxscaffold_1G00005870 Rroxscaffold_1G00005890 Rroxscaffold_5G00340930 Rroxscaffold_5G00343250 Rroxscaffold_5G00369260
rosa_rugosa Rorug05G0442200 Rorug05G0442300.1 Rorug05G0442400 Rorug05G0442500 Rorug05G0442600 Rorug05G0442700 Rorug05G0442900
rosa_samantha Rh1AG189900 Rh2DG257500 Rh5AG498900 Rh5AG499100 Rh5AG499400 Rh5AG499500 Rh5AG499600 Rh5AG499700 Rh5AG499900 Rh5AG506800 Rh5BG519900 Rh5BG520100 Rh5BG520400 Rh5BG520500 Rh5BG520600 Rh5BG520800 Rh5BG520900 Rh5BG521100 Rh5CG543900 Rh5CG544100 Rh5CG544400 Rh5CG544500 Rh5CG544600 Rh5CG544800 Rh5CG544900 Rh5CG545000 Rh5CG545200 Rh5DG532700 Rh5DG533100 Rh5DG533200 Rh5DG533400 Rh5DG533500 Rh5DG533600 Rh5DG533700
rosa_wichuraiana Rw5G046310 Rw5G046340 Rw5G046350 Rw5G046360 Rw5G046370 Rw5G046380 Rw5G046400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 132
AccB7I CCANNNNNTGG 1 cut(s) 114
AcoI YGGCCR 1 cut(s) 226
AcsI RAATTY 1 cut(s) 321
AcuI CTGAAG 1 cut(s) 350
AcyI GRCGYC 1 cut(s) 133
AdeI CACNNNGTG 1 cut(s) 114
AfiI CCNNNNNNNGG 5 cut(s) 66, 111, 114, 142, 224
AgsI TTSAA 5 cut(s) 128, 169, 205, 245, 410
AluBI AGCT 1 cut(s) 75
AluI AGCT 1 cut(s) 75
Alw26I GTCTC 3 cut(s) 61, 341, 408
Ama87I CYCGRG 1 cut(s) 352
AoxI GGCC 2 cut(s) 102, 226
ApeKI GCWGC 1 cut(s) 260
ApoI RAATTY 1 cut(s) 321
Asp700I GAANNNNTTC 1 cut(s) 322
AspLEI GCGC 1 cut(s) 135
AvaI CYCGRG 1 cut(s) 352
BaeGI GKGCMC 1 cut(s) 400
BalI TGGCCA 1 cut(s) 228
BanI GGYRCC 1 cut(s) 132
BauI CACGAG 1 cut(s) 93
BbvI GCAGC 1 cut(s) 247
BccI CCATC 1 cut(s) 46
BceAI ACGGC 2 cut(s) 263, 404
BcoDI GTCTC 3 cut(s) 61, 341, 408
BfoI RGCGCY 1 cut(s) 136
BisI GCNGC 1 cut(s) 261
BlsI GCNGC 1 cut(s) 262
BmeT110I CYCGRG 1 cut(s) 352
BmiI GGNNCC 1 cut(s) 134
BmsI GCATC 7 cut(s) 15, 37, 72, 148, 220, 302, 400
Bsa29I ATCGAT 1 cut(s) 15
BsaHI GRCGYC 1 cut(s) 133
BsaI GGTCTC 2 cut(s) 61, 341
BsaJI CCNNGG 1 cut(s) 351
Bsc4I CCNNNNNNNGG 5 cut(s) 66, 111, 114, 142, 224
Bse118I RCCGGY 1 cut(s) 135
Bse1I ACTGG 1 cut(s) 301
BseCI ATCGAT 1 cut(s) 15
BseDI CCNNGG 1 cut(s) 351
BseLI CCNNNNNNNGG 5 cut(s) 66, 111, 114, 142, 224
BseMII CTCAG 1 cut(s) 12
BseNI ACTGG 1 cut(s) 301
BseSI GKGCMC 1 cut(s) 400
BseXI GCAGC 1 cut(s) 247
BshFI GGCC 2 cut(s) 104, 228
BshNI GGYRCC 1 cut(s) 132
BshVI ATCGAT 1 cut(s) 15
BsiHKCI CYCGRG 1 cut(s) 352
BsiSI CCGG 1 cut(s) 136
BslFI GGGAC 1 cut(s) 354
BslI CCNNNNNNNGG 5 cut(s) 66, 111, 114, 142, 224
BsmAI GTCTC 3 cut(s) 61, 341, 408
BsmFI GGGAC 1 cut(s) 354
BsnI GGCC 2 cut(s) 104, 228
Bso31I GGTCTC 2 cut(s) 61, 341
BsoBI CYCGRG 1 cut(s) 352
Bsp1286I GDGCHC 1 cut(s) 400
BspANI GGCC 2 cut(s) 104, 228
BspCNI CTCAG 1 cut(s) 13
BspDI ATCGAT 1 cut(s) 15
BspLI GGNNCC 1 cut(s) 134
BspT107I GGYRCC 1 cut(s) 132
BspTNI GGTCTC 2 cut(s) 61, 341
BsrFI RCCGGY 1 cut(s) 135
BsrI ACTGG 1 cut(s) 301
BssAI RCCGGY 1 cut(s) 135
BssECI CCNNGG 1 cut(s) 351
BssNI GRCGYC 1 cut(s) 133
BssSI CACGAG 1 cut(s) 93
Bst2BI CACGAG 1 cut(s) 93
Bst6I CTCTTC 1 cut(s) 200
BstACI GRCGYC 1 cut(s) 133
BstC8I GCNNGC 2 cut(s) 137, 339
BstDEI CTNAG 1 cut(s) 21
BstH2I RGCGCY 1 cut(s) 136
BstHHI GCGC 1 cut(s) 135
BstMAI GTCTC 3 cut(s) 61, 341, 408
BstSLI GKGCMC 1 cut(s) 400
BstV1I GCAGC 1 cut(s) 247
Bsu15I ATCGAT 1 cut(s) 15
BsuRI GGCC 2 cut(s) 104, 228
BsuTUI ATCGAT 1 cut(s) 15
Cac8I GCNNGC 2 cut(s) 137, 339
CfoI GCGC 1 cut(s) 135
Cfr10I RCCGGY 1 cut(s) 135
ClaI ATCGAT 1 cut(s) 15
CviJI RGCY 5 cut(s) 75, 104, 123, 228, 300
CviKI_1 RGCY 5 cut(s) 75, 104, 123, 228, 300
DdeI CTNAG 1 cut(s) 21
DinI GGCGCC 1 cut(s) 134
DraIII CACNNNGTG 1 cut(s) 114
EaeI YGGCCR 1 cut(s) 226
Eam1104I CTCTTC 1 cut(s) 200
EarI CTCTTC 1 cut(s) 200
Eco31I GGTCTC 2 cut(s) 61, 341
Eco32I GATATC 1 cut(s) 7
Eco57I CTGAAG 1 cut(s) 350
Eco88I CYCGRG 1 cut(s) 352
EcoRV GATATC 1 cut(s) 7
EcoT22I ATGCAT 1 cut(s) 30
EgeI GGCGCC 1 cut(s) 134
EheI GGCGCC 1 cut(s) 134
FaiI YATR 1 cut(s) 285
FaqI GGGAC 1 cut(s) 354
Fnu4HI GCNGC 1 cut(s) 261
Fsp4HI GCNGC 1 cut(s) 261
GlaI GCGC 1 cut(s) 134
GluI GCNGC 1 cut(s) 261
HaeII RGCGCY 1 cut(s) 136
HaeIII GGCC 2 cut(s) 104, 228
HapII CCGG 1 cut(s) 136
HhaI GCGC 1 cut(s) 135
Hin1I GRCGYC 1 cut(s) 133
Hin6I GCGC 1 cut(s) 133
HinP1I GCGC 1 cut(s) 133
HinfI GANTC 3 cut(s) 89, 148, 165
HpaII CCGG 1 cut(s) 136
Hpy188I TCNGA 3 cut(s) 186, 307, 330
Hpy188III TCNNGA 2 cut(s) 93, 354
Hpy99I CGWCG 1 cut(s) 65
HpyAV CCTTC 1 cut(s) 229
HpyCH4V TGCA 5 cut(s) 28, 34, 263, 293, 362
HpyF3I CTNAG 1 cut(s) 21
Hsp92I GRCGYC 1 cut(s) 133
HspAI GCGC 1 cut(s) 133
KasI GGCGCC 1 cut(s) 132
KroI GCCGGC 1 cut(s) 135
KroNI GCCGGC 1 cut(s) 137
LpnPI CCDG 7 cut(s) 96, 99, 149, 175, 210, 314, 395
Lsp1109I GCAGC 1 cut(s) 247
LweI GCATC 7 cut(s) 15, 37, 72, 148, 220, 302, 400
MaeIII GTNAC 1 cut(s) 237
MboII GAAGA 3 cut(s) 199, 206, 217
MhlI GDGCHC 1 cut(s) 400
MlsI TGGCCA 1 cut(s) 228
MluCI AATT 3 cut(s) 178, 255, 321
MluNI TGGCCA 1 cut(s) 228
Mly113I GGCGCC 1 cut(s) 133
MmeI TCCRAC 1 cut(s) 402
MnlI CCTC 6 cut(s) 115, 201, 226, 265, 361, 385
Mox20I TGGCCA 1 cut(s) 228
Mph1103I ATGCAT 1 cut(s) 30
MreI CGCCGGCG 1 cut(s) 135
MroNI GCCGGC 1 cut(s) 135
MroXI GAANNNNTTC 1 cut(s) 322
MscI TGGCCA 1 cut(s) 228
Msp20I TGGCCA 1 cut(s) 228
MspI CCGG 1 cut(s) 136
NaeI GCCGGC 1 cut(s) 137
NarI GGCGCC 1 cut(s) 133
NgoMIV GCCGGC 1 cut(s) 135
NlaIV GGNNCC 1 cut(s) 134
NsiI ATGCAT 1 cut(s) 30
PdiI GCCGGC 1 cut(s) 137
PdmI GAANNNNTTC 1 cut(s) 322
PfeI GAWTC 3 cut(s) 89, 148, 165
PflMI CCANNNNNTGG 1 cut(s) 114
PkrI GCNGC 1 cut(s) 262
PluTI GGCGCC 1 cut(s) 136
PspN4I GGNNCC 1 cut(s) 134
SatI GCNGC 1 cut(s) 261
SduI GDGCHC 1 cut(s) 400
SetI ASST 5 cut(s) 40, 77, 269, 353, 384
SfaNI GCATC 7 cut(s) 15, 37, 72, 148, 220, 302, 400
SfoI GGCGCC 1 cut(s) 134
SgrAI CRCCGGYG 1 cut(s) 135
Sse9I AATT 3 cut(s) 178, 255, 321
SspDI GGCGCC 1 cut(s) 132
TaqI TCGA 3 cut(s) 15, 63, 270
TasI AATT 3 cut(s) 178, 255, 321
TfiI GAWTC 3 cut(s) 89, 148, 165
TseI GCWGC 1 cut(s) 260
TspGWI ACGGA 1 cut(s) 49
Van91I CCANNNNNTGG 1 cut(s) 114
XapI RAATTY 1 cut(s) 321
XmnI GAANNNNTTC 1 cut(s) 322
Zsp2I ATGCAT 1 cut(s) 30
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.