RchiOBHm_Chr2g0107521

Transcriptional regulator of RNA polII, SAGA, subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0016735
Physical Location & Seq
Reverse (-)
18799372 .. 18801667
2296 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 987 bp
ATGCCAGCAAGTAGGCAATTTTCTCGGATAGACACTTCAGAACTAAAAGATCAGATTGAGAGGAAGGTTGGGAGCCTGAAGGCAGAAAAGTATTTCAGTCTTCTCACAGGATACTTGAGTCTCAAGATTCGCAAATCCGATTTTGATAGGCTCTGCATTGAAACAATAGGAAAAGAAAATGTCTGTCTTCATAATCATCTTATCCGTTCCATACTGAGAAATGCAAGCCTTTCGAAGACTCCACCATCGAGCAAAAGCAGCTTTGCAGGTTCTCTTAGTGTAAAAGTGGCAAATGGATATCAAAAAAGTAGTCTTCAATTGTTATGCAGAGATTTCCCCAAATCACCTAAGAAAGAGAGGACTCCCAATCTTCGTGATCGAAGGGCAAGGAATCGTTTGACCTATTCTGAGGCTCCTATTGCAAAACTTCAAGTACAAGAAAGGGCAACCGTGCTTCTTTCTTTGGGGGGCAGACCCCCCGGCTCAGATGAAGACGGGGAAGAGGTTGATCAGGCTGCTGAATGTCCAAGCATCCACAGTATAAGACCTCTTAGTGCTCCTCTCGGAATCCCAATATGCACTGGAAGGACAAAAAAACTGTTAATCAAAGGATCAGCACCTTCTATTTACAATGAGACTTGTCTGAACGGTGGGGAGTTACCTGATACTAGTTCTTTAAGAAAGAGGTTGAAGCAAAAGTTGGAGATGGATGGAATGGAACTGTCCGAGGATTGTGCCAACTTGTTGAATAATGGACTTGATGTTTTCTTAAAGAGATTAATAAGGCCCTGTTTGGATTTAGCTGGTTCAAGGTCTAAGGACAGACACATAGATAGAGAACATAGCGATGATATGAGAAACGTACAAAGACCAAGCAGGCCTTATTCAGCATCTGTACTAGACTTTCGGGCTGCGATGGATTTGAACCCTCAAATACTTGGAGAAGATTGGCCAACAAAACTTGAGAAGGTTTGCTTGCATGCATAG
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
SAGA-Tad1

Protein Analysis

328

Amino Acids

36.67

Weight (kDa)

9.35

Isoelectric Point (pI)

46.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SAGA-Tad1 PF12767 6 - 268 9.9e-51 Transcriptional regulator of RNA polII, SAGA, subunit
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: OG0016735)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g17350 FvH4_1g17350
prunus_persica Prupe.6G223300_v2.0.a1
rosa_chinensis RchiOBHm_Chr2g0107521
rosa_laevigata RLG00000017588
rosa_multiflora Rmu_sc0001065.1_g000016
rosa_roxburghii Rroxscaffold_2G00136220
rosa_rugosa Rorug02G0144600 Rorug02G0144700
rosa_samantha Rh2AG194500 Rh2BG207200 Rh2CG199700 Rh2DG201800
rosa_wichuraiana Rw2G015410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 257
AclWI GGATC 1 cut(s) 619
AcoI YGGCCR 1 cut(s) 950
AcuI CTGAAG 2 cut(s) 21, 98
AfaI GTAC 3 cut(s) 435, 864, 897
AgsI TTSAA 7 cut(s) 161, 317, 431, 691, 748, 810, 925
AhlI ACTAGT 1 cut(s) 668
AjuI GAANNNNNNNTTGG 2 cut(s) 683, 715
AluBI AGCT 2 cut(s) 261, 803
AluI AGCT 2 cut(s) 261, 803
Alw21I GWGCWC 1 cut(s) 559
Alw26I GTCTC 2 cut(s) 125, 629
AlwI GGATC 1 cut(s) 619
AlwNI CAGNNNCTG 1 cut(s) 893
AoxI GGCC 3 cut(s) 785, 878, 950
ApeKI GCWGC 3 cut(s) 258, 515, 911
ArsI GACNNNNNNTTYG 2 cut(s) 295, 327
AseI ATTAAT 1 cut(s) 779
AspS9I GGNCC 1 cut(s) 786
AsuC2I CCSGG 1 cut(s) 480
AsuHPI GGTGA 1 cut(s) 336
AsuII TTCGAA 1 cut(s) 233
BaeI ACNNNNGTAYC 2 cut(s) 103, 136
BalI TGGCCA 1 cut(s) 952
BbsI GAAGAC 5 cut(s) 92, 179, 242, 305, 498
Bbv12I GWGCWC 1 cut(s) 559
BbvI GCAGC 3 cut(s) 270, 502, 898
BccI CCATC 4 cut(s) 253, 700, 704, 910
BcgI CGANNNNNNTGC 6 cut(s) 5, 39, 213, 247, 716, 750
BciVI GTATCC 1 cut(s) 104
BclI TGATCA 1 cut(s) 508
BcnI CCSGG 1 cut(s) 480
BcoDI GTCTC 2 cut(s) 125, 629
BcuI ACTAGT 1 cut(s) 668
BfaI CTAG 2 cut(s) 669, 899
BfuAI ACCTGC 1 cut(s) 257
BfuI GTATCC 1 cut(s) 104
BisI GCNGC 3 cut(s) 259, 516, 912
BlsI GCNGC 3 cut(s) 260, 517, 913
Bme1390I CCNGG 1 cut(s) 480
BmgT120I GGNCC 1 cut(s) 786
BmiI GGNNCC 2 cut(s) 74, 414
BmrFI CCNGG 1 cut(s) 480
BmsI GCATC 2 cut(s) 540, 899
BpiI GAAGAC 5 cut(s) 92, 179, 242, 305, 498
Bpu14I TTCGAA 1 cut(s) 233
BpuEI CTTGAG 3 cut(s) 107, 136, 983
BpuMI CCSGG 1 cut(s) 480
BsaJI CCNNGG 2 cut(s) 478, 726
Bse1I ACTGG 1 cut(s) 586
BseDI CCNNGG 2 cut(s) 478, 726
BseGI GGATG 2 cut(s) 531, 715
BseMII CTCAG 3 cut(s) 206, 399, 498
BseNI ACTGG 1 cut(s) 586
BseRI GAGGAG 1 cut(s) 549
BseXI GCAGC 3 cut(s) 270, 502, 898
BshFI GGCC 3 cut(s) 787, 880, 952
BsiHKAI GWGCWC 1 cut(s) 559
BsiSI CCGG 1 cut(s) 480
BsmAI GTCTC 2 cut(s) 125, 629
BsnI GGCC 3 cut(s) 787, 880, 952
Bsp119I TTCGAA 1 cut(s) 233
Bsp1286I GDGCHC 1 cut(s) 559
Bsp143I GATC 4 cut(s) 49, 376, 508, 611
BspANI GGCC 3 cut(s) 787, 880, 952
BspCNI CTCAG 3 cut(s) 207, 400, 497
BspLI GGNNCC 2 cut(s) 74, 414
BspMI ACCTGC 1 cut(s) 257
BspPI GGATC 1 cut(s) 619
BspT104I TTCGAA 1 cut(s) 233
BsrI ACTGG 1 cut(s) 586
BssECI CCNNGG 2 cut(s) 478, 726
BssMI GATC 4 cut(s) 49, 376, 508, 611
Bst4CI ACNGT 5 cut(s) 451, 539, 600, 650, 723
Bst6I CTCTTC 1 cut(s) 495
BstBI TTCGAA 1 cut(s) 233
BstC8I GCNNGC 5 cut(s) 6, 226, 878, 977, 981
BstDEI CTNAG 7 cut(s) 215, 275, 348, 408, 484, 551, 816
BstF5I GGATG 2 cut(s) 531, 715
BstKTI GATC 4 cut(s) 52, 379, 511, 614
BstMAI GTCTC 2 cut(s) 125, 629
BstMBI GATC 4 cut(s) 49, 376, 508, 611
BstMWI GCNNNNNNNGC 2 cut(s) 258, 419
BstNSI RCATGY 1 cut(s) 983
BstSCI CCNGG 1 cut(s) 478
BstV1I GCAGC 3 cut(s) 270, 502, 898
BstV2I GAAGAC 5 cut(s) 92, 179, 242, 305, 498
BsuI GTATCC 1 cut(s) 104
BsuRI GGCC 3 cut(s) 787, 880, 952
BtgZI GCGATG 2 cut(s) 861, 929
BtsCI GGATG 2 cut(s) 531, 715
BtsIMutI CAGTG 1 cut(s) 579
BveI ACCTGC 1 cut(s) 257
Cac8I GCNNGC 5 cut(s) 6, 226, 878, 977, 981
CaiI CAGNNNCTG 1 cut(s) 893
Cfr13I GGNCC 1 cut(s) 786
Csp6I GTAC 3 cut(s) 434, 863, 896
CviAII CATG 1 cut(s) 980
CviQI GTAC 3 cut(s) 434, 863, 896
DdeI CTNAG 7 cut(s) 215, 275, 348, 408, 484, 551, 816
DpnI GATC 4 cut(s) 51, 378, 510, 613
DpnII GATC 4 cut(s) 49, 376, 508, 611
EaeI YGGCCR 1 cut(s) 950
Eam1104I CTCTTC 1 cut(s) 495
EarI CTCTTC 1 cut(s) 495
Eco147I AGGCCT 1 cut(s) 880
Eco32I GATATC 1 cut(s) 299
Eco57I CTGAAG 2 cut(s) 21, 98
EcoO109I RGGNCCY 1 cut(s) 786
EcoRV GATATC 1 cut(s) 299
EcoT22I ATGCAT 1 cut(s) 985
FaeI CATG 1 cut(s) 983
FalI AAGNNNNNCTT 3 cut(s) 865, 897, 959
FatI CATG 1 cut(s) 979
FbaI TGATCA 1 cut(s) 508
Fnu4HI GCNGC 3 cut(s) 259, 516, 912
FokI GGATG 2 cut(s) 518, 722
Fsp4HI GCNGC 3 cut(s) 259, 516, 912
FspBI CTAG 2 cut(s) 669, 899
GluI GCNGC 3 cut(s) 259, 516, 912
HaeIII GGCC 3 cut(s) 787, 880, 952
HapII CCGG 1 cut(s) 480
Hin1II CATG 1 cut(s) 983
HinfI GANTC 6 cut(s) 118, 127, 238, 361, 391, 567
HpaII CCGG 1 cut(s) 480
HphI GGTGA 1 cut(s) 336
Hpy188I TCNGA 9 cut(s) 27, 40, 54, 139, 409, 487, 566, 645, 727
Hpy188III TCNNGA 2 cut(s) 124, 374
HpyAV CCTTC 6 cut(s) 58, 73, 375, 579, 630, 961
HpyCH4III ACNGT 5 cut(s) 451, 539, 600, 650, 723
HpyCH4IV ACGT 1 cut(s) 861
HpyCH4V TGCA 8 cut(s) 156, 224, 266, 327, 422, 579, 979, 983
HpyF10VI GCNNNNNNNGC 2 cut(s) 258, 419
HpyF3I CTNAG 7 cut(s) 215, 275, 348, 408, 484, 551, 816
HpySE526I ACGT 1 cut(s) 861
Hsp92II CATG 1 cut(s) 983
Ksp22I TGATCA 1 cut(s) 508
Kzo9I GATC 4 cut(s) 49, 376, 508, 611
LmnI GCTCC 3 cut(s) 72, 418, 562
Lsp1109I GCAGC 3 cut(s) 270, 502, 898
LweI GCATC 2 cut(s) 540, 899
MaeI CTAG 2 cut(s) 669, 899
MaeII ACGT 1 cut(s) 861
MaeIII GTNAC 1 cut(s) 657
MalI GATC 4 cut(s) 51, 378, 510, 613
MboI GATC 4 cut(s) 49, 376, 508, 611
MboII GAAGA 8 cut(s) 92, 179, 247, 305, 362, 503, 512, 956
MfeI CAATTG 1 cut(s) 317
MhlI GDGCHC 1 cut(s) 559
MlsI TGGCCA 1 cut(s) 952
MluCI AATT 2 cut(s) 17, 317
MluNI TGGCCA 1 cut(s) 952
MlyI GAGTC 3 cut(s) 127, 232, 355
MmeI TCCRAC 1 cut(s) 681
MnlI CCTC 9 cut(s) 54, 351, 403, 496, 558, 570, 678, 721, 939
Mox20I TGGCCA 1 cut(s) 952
Mph1103I ATGCAT 1 cut(s) 985
MscI TGGCCA 1 cut(s) 952
MseI TTAA 4 cut(s) 602, 677, 770, 779
MslI CAYNNNNRTG 1 cut(s) 846
Msp20I TGGCCA 1 cut(s) 952
MspI CCGG 1 cut(s) 480
MspR9I CCNGG 1 cut(s) 480
MunI CAATTG 1 cut(s) 317
MwoI GCNNNNNNNGC 2 cut(s) 258, 419
NciI CCSGG 1 cut(s) 480
NdeII GATC 4 cut(s) 49, 376, 508, 611
NlaIII CATG 1 cut(s) 983
NlaIV GGNNCC 2 cut(s) 74, 414
NsiI ATGCAT 1 cut(s) 985
NspI RCATGY 1 cut(s) 983
NspV TTCGAA 1 cut(s) 233
PaeI GCATGC 1 cut(s) 983
PceI AGGCCT 1 cut(s) 880
PfeI GAWTC 3 cut(s) 127, 391, 567
PkrI GCNGC 3 cut(s) 260, 517, 913
PleI GAGTC 3 cut(s) 126, 232, 355
PpsI GAGTC 3 cut(s) 126, 232, 355
PshBI ATTAAT 1 cut(s) 779
PspN4I GGNNCC 2 cut(s) 74, 414
PspPI GGNCC 1 cut(s) 786
PstNI CAGNNNCTG 1 cut(s) 893
RsaI GTAC 3 cut(s) 435, 864, 897
RsaNI GTAC 3 cut(s) 434, 863, 896
RseI CAYNNNNRTG 1 cut(s) 846
SaqAI TTAA 4 cut(s) 602, 677, 770, 779
SatI GCNGC 3 cut(s) 259, 516, 912
Sau3AI GATC 4 cut(s) 49, 376, 508, 611
Sau96I GGNCC 1 cut(s) 786
SchI GAGTC 3 cut(s) 127, 232, 355
ScrFI CCNGG 1 cut(s) 480
SduI GDGCHC 1 cut(s) 559
SfaNI GCATC 2 cut(s) 540, 899
SfuI TTCGAA 1 cut(s) 233
SmiMI CAYNNNNRTG 1 cut(s) 846
SmlI CTYRAG 3 cut(s) 115, 122, 962
SmoI CTYRAG 3 cut(s) 115, 122, 962
SpeI ACTAGT 1 cut(s) 668
SphI GCATGC 1 cut(s) 983
Sse9I AATT 2 cut(s) 17, 317
SseBI AGGCCT 1 cut(s) 880
SspMI CTAG 2 cut(s) 669, 899
StuI AGGCCT 1 cut(s) 880
StyD4I CCNGG 1 cut(s) 478
TaaI ACNGT 5 cut(s) 451, 539, 600, 650, 723
TaiI ACGT 1 cut(s) 864
TaqI TCGA 3 cut(s) 233, 248, 379
TasI AATT 2 cut(s) 17, 317
TatI WGTACW 2 cut(s) 433, 895
TfiI GAWTC 3 cut(s) 127, 391, 567
Tru1I TTAA 4 cut(s) 602, 677, 770, 779
Tru9I TTAA 4 cut(s) 602, 677, 770, 779
TscAI CASTG 1 cut(s) 586
TseI GCWGC 3 cut(s) 258, 515, 911
TspDTI ATGAA 2 cut(s) 179, 504
TspGWI ACGGA 1 cut(s) 194
TspRI CASTG 1 cut(s) 586
VspI ATTAAT 1 cut(s) 779
XceI RCATGY 1 cut(s) 983
XspI CTAG 2 cut(s) 669, 899
Zsp2I ATGCAT 1 cut(s) 985
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.