RchiOBHm_Chr4g0419101

Mediator of RNA polymerase II transcription subunit 15a-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0000315
Physical Location & Seq
Reverse (-)
44616011 .. 44616813
803 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 441 bp
ATGGATAACAAGAATGGGAGTCCTCCTCAAGGTGGAGAGCCTGCAATGGATGCAGGAGATTGGAGGTGCCAATTGCAGGTGGATTCACGGCAAAGAATTGTCATTAAGATAATGGATACATTGAAGAGGCATATTCCTTACTCCAGTGAAGATGAACTCAAGAAAATTGCTGTTAGGTTTGAGGAAAAGATTTATGTGGCTGCCACAAGTCAGATGCTCACTATGGACACCAAGTCTCAGAACACAATGGCGAATTCTTTACAATCCAACTATGCTGGGTCTTCTGGTATACAACTCCTATCAGAGAACATTCAGAATAACATTCCACCTGCTGGAATTCAAAGTTCTACTGGCTTACCATCCGTGCTACCCCATGACTCCGGGTCACAACAACAAACATTGCCCCCACAGCATCAAGAACAACAATTTATAGGTTCGTAG
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

146

Amino Acids

16.05

Weight (kDa)

5.53

Isoelectric Point (pI)

69.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KIX_2 PF16987 19 - 85 1.9e-18 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)
AarI CACCTGC 2 cut(s) 67, 337
Acc36I ACCTGC 2 cut(s) 67, 337
AccB1I GGYRCC 1 cut(s) 66
AccB7I CCANNNNNTGG 1 cut(s) 332
AccI GTMKAC 1 cut(s) 289
AcsI RAATTY 2 cut(s) 253, 336
AfiI CCNNNNNNNGG 4 cut(s) 29, 32, 76, 332
AgsI TTSAA 2 cut(s) 124, 341
AhdI GACNNNNNGTC 2 cut(s) 232, 382
Alw26I GTCTC 1 cut(s) 240
ApeKI GCWGC 1 cut(s) 200
ApoI RAATTY 2 cut(s) 253, 336
AsuC2I CCSGG 1 cut(s) 382
BanI GGYRCC 1 cut(s) 66
BbsI GAAGAC 1 cut(s) 273
BbvI GCAGC 1 cut(s) 187
BccI CCATC 1 cut(s) 367
BceAI ACGGC 1 cut(s) 104
BciVI GTATCC 1 cut(s) 109
BcnI CCSGG 1 cut(s) 382
BcoDI GTCTC 1 cut(s) 240
BfuAI ACCTGC 2 cut(s) 67, 337
BfuI GTATCC 1 cut(s) 109
BisI GCNGC 1 cut(s) 201
BlsI GCNGC 1 cut(s) 202
Bme1390I CCNGG 1 cut(s) 382
BmeRI GACNNNNNGTC 2 cut(s) 232, 382
BmiI GGNNCC 1 cut(s) 68
BmrFI CCNGG 1 cut(s) 382
BmsI GCATC 3 cut(s) 40, 204, 421
BpiI GAAGAC 1 cut(s) 273
BplI GAGNNNNNCTC 2 cut(s) 10, 42
BpmI CTGGAG 1 cut(s) 127
BpuEI CTTGAG 2 cut(s) 12, 143
BpuMI CCSGG 1 cut(s) 382
Bsc4I CCNNNNNNNGG 4 cut(s) 29, 32, 76, 332
Bse1I ACTGG 2 cut(s) 144, 355
Bse3DI GCAATG 2 cut(s) 51, 398
BseGI GGATG 2 cut(s) 55, 359
BseLI CCNNNNNNNGG 4 cut(s) 29, 32, 76, 332
BseMI GCAATG 2 cut(s) 51, 398
BseMII CTCAG 1 cut(s) 251
BseNI ACTGG 2 cut(s) 144, 355
BseRI GAGGAG 1 cut(s) 15
BseXI GCAGC 1 cut(s) 187
BseYI CCCAGC 1 cut(s) 275
BshNI GGYRCC 1 cut(s) 66
BsiSI CCGG 1 cut(s) 381
BslI CCNNNNNNNGG 4 cut(s) 29, 32, 76, 332
BsmAI GTCTC 1 cut(s) 240
BspCNI CTCAG 1 cut(s) 250
BspLI GGNNCC 1 cut(s) 68
BspMI ACCTGC 2 cut(s) 67, 337
BspT107I GGYRCC 1 cut(s) 66
BsrDI GCAATG 2 cut(s) 51, 398
BsrI ACTGG 2 cut(s) 144, 355
BssNAI GTATAC 1 cut(s) 290
Bst1107I GTATAC 1 cut(s) 290
Bst6I CTCTTC 1 cut(s) 119
BstAPI GCANNNNNTGC 1 cut(s) 50
BstC8I GCNNGC 1 cut(s) 42
BstDEI CTNAG 1 cut(s) 237
BstENI CCTNNNNNAGG 1 cut(s) 27
BstF5I GGATG 2 cut(s) 55, 359
BstMAI GTCTC 1 cut(s) 240
BstMWI GCNNNNNNNGC 2 cut(s) 50, 409
BstSCI CCNGG 1 cut(s) 380
BstV1I GCAGC 1 cut(s) 187
BstV2I GAAGAC 1 cut(s) 273
BstZ17I GTATAC 1 cut(s) 290
BsuI GTATCC 1 cut(s) 109
BtsCI GGATG 2 cut(s) 55, 359
BtsIMutI CAGTG 1 cut(s) 151
BveI ACCTGC 2 cut(s) 67, 337
Cac8I GCNNGC 1 cut(s) 42
CviAII CATG 1 cut(s) 374
CviJI RGCY 3 cut(s) 40, 200, 354
CviKI_1 RGCY 3 cut(s) 40, 200, 354
DdeI CTNAG 1 cut(s) 237
DriI GACNNNNNGTC 2 cut(s) 232, 382
Eam1104I CTCTTC 1 cut(s) 119
Eam1105I GACNNNNNGTC 2 cut(s) 232, 382
EarI CTCTTC 1 cut(s) 119
EcoNI CCTNNNNNAGG 1 cut(s) 27
EcoRI GAATTC 2 cut(s) 253, 336
FaeI CATG 1 cut(s) 377
FaiI YATR 7 cut(s) 132, 195, 224, 273, 290, 375, 431
FatI CATG 1 cut(s) 373
FblI GTMKAC 1 cut(s) 289
Fnu4HI GCNGC 1 cut(s) 201
FokI GGATG 2 cut(s) 62, 346
Fsp4HI GCNGC 1 cut(s) 201
GluI GCNGC 1 cut(s) 201
GsaI CCCAGC 1 cut(s) 279
GsuI CTGGAG 1 cut(s) 127
HapII CCGG 1 cut(s) 381
Hin1II CATG 1 cut(s) 377
HinfI GANTC 3 cut(s) 19, 83, 377
HpaII CCGG 1 cut(s) 381
Hpy166II GTNNAC 1 cut(s) 290
Hpy188I TCNGA 4 cut(s) 213, 240, 304, 315
Hpy188III TCNNGA 2 cut(s) 160, 416
Hpy8I GTNNAC 1 cut(s) 290
HpyCH4V TGCA 3 cut(s) 44, 53, 76
HpyF10VI GCNNNNNNNGC 2 cut(s) 50, 409
HpyF3I CTNAG 1 cut(s) 237
Hsp92II CATG 1 cut(s) 377
Lsp1109I GCAGC 1 cut(s) 187
LweI GCATC 3 cut(s) 40, 204, 421
MaeIII GTNAC 1 cut(s) 384
MboII GAAGA 3 cut(s) 136, 161, 273
MfeI CAATTG 1 cut(s) 71
MluCI AATT 6 cut(s) 71, 96, 165, 253, 336, 425
MlyI GAGTC 2 cut(s) 28, 371
MmeI TCCRAC 1 cut(s) 291
MnlI CCTC 5 cut(s) 33, 36, 57, 120, 175
MseI TTAA 1 cut(s) 105
MspI CCGG 1 cut(s) 381
MspR9I CCNGG 1 cut(s) 382
MunI CAATTG 1 cut(s) 71
MwoI GCNNNNNNNGC 2 cut(s) 50, 409
NciI CCSGG 1 cut(s) 382
NlaIII CATG 1 cut(s) 377
NlaIV GGNNCC 1 cut(s) 68
NmuCI GTSAC 1 cut(s) 384
PaqCI CACCTGC 2 cut(s) 67, 337
PfeI GAWTC 1 cut(s) 83
PflMI CCANNNNNTGG 1 cut(s) 332
PkrI GCNGC 1 cut(s) 202
PleI GAGTC 2 cut(s) 27, 371
PpsI GAGTC 2 cut(s) 27, 371
PspFI CCCAGC 1 cut(s) 275
PspN4I GGNNCC 1 cut(s) 68
SaqAI TTAA 1 cut(s) 105
SatI GCNGC 1 cut(s) 201
SchI GAGTC 2 cut(s) 28, 371
ScrFI CCNGG 1 cut(s) 382
SetI ASST 6 cut(s) 34, 68, 81, 179, 331, 436
SfaNI GCATC 3 cut(s) 40, 204, 421
SmlI CTYRAG 2 cut(s) 27, 158
SmoI CTYRAG 2 cut(s) 27, 158
Sse9I AATT 6 cut(s) 71, 96, 165, 253, 336, 425
StyD4I CCNGG 1 cut(s) 380
TasI AATT 6 cut(s) 71, 96, 165, 253, 336, 425
TfiI GAWTC 1 cut(s) 83
Tru1I TTAA 1 cut(s) 105
Tru9I TTAA 1 cut(s) 105
TscAI CASTG 1 cut(s) 151
TseFI GTSAC 1 cut(s) 384
TseI GCWGC 1 cut(s) 200
Tsp45I GTSAC 1 cut(s) 384
TspDTI ATGAA 1 cut(s) 168
TspGWI ACGGA 1 cut(s) 352
TspRI CASTG 1 cut(s) 151
Van91I CCANNNNNTGG 1 cut(s) 332
XagI CCTNNNNNAGG 1 cut(s) 27
XapI RAATTY 2 cut(s) 253, 336
XmiI GTMKAC 1 cut(s) 289
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.