RchiOBHm_Chr5g0004451
MADS Family

MADS-box transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0017997
Physical Location & Seq
Forward (+)
2870182 .. 2870616
435 bp
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UTR
Exon/CDS
Intron
PRQ28568

Sequence Viewer

Length: 435 bp
ATGGGTACCGGAAAGAAGAAAATTGACATAGAGCCGATCACCGACTATCAGTCTCGCATGGTGGCCTTCACCAGGAGACGAACAGGTCTCTTCAAAAAAGCTCAGAAGCTCGAAGAAATGTCTGGTTCATCCATCGCCATTGCTGTGATCTCCGAGACCGGTCAACCTTACCTCCATGGCTCTCCTTCCTTGCTTGAACGAGTTCTTGCCTCCAAAGCCTCTTCCTCAGCTTCTACCACTACAGCTGACGCTGGCTCTTCCACCACCACCGCCACTACAGGATCTTTAGAAAGATTTAAGGCCGGGGTGAACTCTCAGATTGAAGCTTGTACCACTCTGGAAGAAGCAGAGATTGTGAAAAGGAAATTGTTGGAAATCAAAAAGAGGGCGGACGGTAAACTTTCTGGAAGTGATCTTCAATTTGTTCTTAATTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04011 ko04111 map04011 map04111
Pfam Domains
Protein Families
SRF-TF

Protein Analysis

144

Amino Acids

15.43

Weight (kDa)

9.44

Isoelectric Point (pI)

53.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 12 - 57 2e-13 SRF-type transcription factor (DNA-binding and dimerisation 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
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Orthologous Genes (Group: OG0017997)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g02880
rosa_chinensis RchiOBHm_Chr5g0004451
rosa_laevigata RLG00000031227
rosa_multiflora Rmu_sc0000433.1_g000010 Rmu_sc0002453.1_g000004
rosa_roxburghii Rroxscaffold_1G00071100
rosa_rugosa Rorug04G0411700
rosa_samantha Rh5AG039100 Rh5BG038100 Rh5CG042300 Rh5DG037700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 84
Acc65I GGTACC 1 cut(s) 5
AccB1I GGYRCC 1 cut(s) 5
AciI CCGC 2 cut(s) 270, 389
AclWI GGATC 1 cut(s) 289
AfaI GTAC 2 cut(s) 7, 331
AfiI CCNNNNNNNGG 1 cut(s) 72
AgeI ACCGGT 1 cut(s) 158
AgsI TTSAA 4 cut(s) 94, 197, 323, 419
AhdI GACNNNNNGTC 1 cut(s) 49
AjnI CCWGG 1 cut(s) 71
AluBI AGCT 5 cut(s) 101, 109, 230, 245, 326
AluI AGCT 5 cut(s) 101, 109, 230, 245, 326
Alw26I GTCTC 4 cut(s) 57, 70, 92, 149
AlwI GGATC 1 cut(s) 289
AoxI GGCC 2 cut(s) 63, 300
AsiGI ACCGGT 1 cut(s) 158
Asp700I GAANNNNTTC 1 cut(s) 201
Asp718I GGTACC 1 cut(s) 5
AsuC2I CCSGG 1 cut(s) 304
AsuHPI GGTGA 3 cut(s) 31, 61, 319
BanI GGYRCC 1 cut(s) 5
BbvCI CCTCAGC 1 cut(s) 226
BccI CCATC 1 cut(s) 140
BciT130I CCWGG 1 cut(s) 73
BcnI CCSGG 1 cut(s) 304
BcoDI GTCTC 4 cut(s) 57, 70, 92, 149
BfmI CTRYAG 2 cut(s) 240, 276
Bme1390I CCNGG 2 cut(s) 73, 304
BmeRI GACNNNNNGTC 1 cut(s) 49
BmiI GGNNCC 1 cut(s) 7
BmrFI CCNGG 2 cut(s) 73, 304
Bpu10I CCTNAGC 1 cut(s) 226
BpuMI CCSGG 1 cut(s) 304
BsaI GGTCTC 2 cut(s) 92, 149
BsaJI CCNNGG 2 cut(s) 175, 303
BsaWI WCCGGW 2 cut(s) 8, 158
BsaXI ACNNNNNCTCC 2 cut(s) 156, 186
Bsc4I CCNNNNNNNGG 1 cut(s) 72
Bse118I RCCGGY 1 cut(s) 158
Bse3DI GCAATG 1 cut(s) 138
BseBI CCWGG 1 cut(s) 73
BseDI CCNNGG 2 cut(s) 175, 303
BseGI GGATG 1 cut(s) 128
BseLI CCNNNNNNNGG 1 cut(s) 72
BseMI GCAATG 1 cut(s) 138
BseMII CTCAG 3 cut(s) 116, 240, 329
BshFI GGCC 2 cut(s) 65, 302
BshNI GGYRCC 1 cut(s) 5
BshTI ACCGGT 1 cut(s) 158
BsiSI CCGG 3 cut(s) 9, 159, 303
BslI CCNNNNNNNGG 1 cut(s) 72
BsmAI GTCTC 4 cut(s) 57, 70, 92, 149
BsmBI CGTCTC 1 cut(s) 70
BsnI GGCC 2 cut(s) 65, 302
Bso31I GGTCTC 2 cut(s) 92, 149
Bsp143I GATC 4 cut(s) 36, 147, 281, 412
Bsp19I CCATGG 1 cut(s) 175
BspACI CCGC 2 cut(s) 270, 389
BspANI GGCC 2 cut(s) 65, 302
BspCNI CTCAG 3 cut(s) 115, 239, 328
BspLI GGNNCC 1 cut(s) 7
BspPI GGATC 1 cut(s) 289
BspQI GCTCTTC 1 cut(s) 262
BspT107I GGYRCC 1 cut(s) 5
BspTNI GGTCTC 2 cut(s) 92, 149
BsrDI GCAATG 1 cut(s) 138
BsrFI RCCGGY 1 cut(s) 158
BssAI RCCGGY 1 cut(s) 158
BssECI CCNNGG 2 cut(s) 175, 303
BssMI GATC 4 cut(s) 36, 147, 281, 412
BssT1I CCWWGG 1 cut(s) 175
Bst2UI CCWGG 1 cut(s) 73
Bst4CI ACNGT 1 cut(s) 395
Bst6I CTCTTC 3 cut(s) 95, 226, 262
BstC8I GCNNGC 1 cut(s) 253
BstDEI CTNAG 3 cut(s) 102, 226, 315
BstDSI CCRYGG 1 cut(s) 175
BstENI CCTNNNNNAGG 1 cut(s) 70
BstF5I GGATG 1 cut(s) 128
BstKTI GATC 4 cut(s) 39, 150, 284, 415
BstMAI GTCTC 4 cut(s) 57, 70, 92, 149
BstMBI GATC 4 cut(s) 36, 147, 281, 412
BstMWI GCNNNNNNNGC 1 cut(s) 215
BstNI CCWGG 1 cut(s) 73
BstSCI CCNGG 2 cut(s) 71, 302
BstSFI CTRYAG 2 cut(s) 240, 276
BstX2I RGATCY 1 cut(s) 281
BstYI RGATCY 1 cut(s) 281
BsuRI GGCC 2 cut(s) 65, 302
BtgI CCRYGG 1 cut(s) 175
BtgZI GCGATG 1 cut(s) 118
BtsCI GGATG 1 cut(s) 128
Cac8I GCNNGC 1 cut(s) 253
Cfr10I RCCGGY 1 cut(s) 158
CseI GACGC 1 cut(s) 257
Csp6I GTAC 2 cut(s) 6, 330
CspAI ACCGGT 1 cut(s) 158
CviAII CATG 2 cut(s) 58, 176
CviQI GTAC 2 cut(s) 6, 330
DdeI CTNAG 3 cut(s) 102, 226, 315
DpnI GATC 4 cut(s) 38, 149, 283, 414
DpnII GATC 4 cut(s) 36, 147, 281, 412
DrdI GACNNNNNNGTC 1 cut(s) 84
DriI GACNNNNNGTC 1 cut(s) 49
DseDI GACNNNNNNGTC 1 cut(s) 84
Eam1104I CTCTTC 3 cut(s) 95, 226, 262
Eam1105I GACNNNNNGTC 1 cut(s) 49
EarI CTCTTC 3 cut(s) 95, 226, 262
EciI GGCGGA 1 cut(s) 404
Eco130I CCWWGG 1 cut(s) 175
Eco31I GGTCTC 2 cut(s) 92, 149
EcoNI CCTNNNNNAGG 1 cut(s) 70
EcoRII CCWGG 1 cut(s) 71
EcoT14I CCWWGG 1 cut(s) 175
ErhI CCWWGG 1 cut(s) 175
Esp3I CGTCTC 1 cut(s) 70
FaeI CATG 2 cut(s) 61, 179
FaiI YATR 3 cut(s) 29, 59, 177
FatI CATG 2 cut(s) 57, 175
FokI GGATG 1 cut(s) 115
HaeIII GGCC 2 cut(s) 65, 302
HapII CCGG 3 cut(s) 9, 159, 303
HgaI GACGC 1 cut(s) 257
Hin1II CATG 2 cut(s) 61, 179
HincII GTYRAC 1 cut(s) 164
HindII GTYRAC 1 cut(s) 164
HindIII AAGCTT 1 cut(s) 324
HpaII CCGG 3 cut(s) 9, 159, 303
HphI GGTGA 3 cut(s) 31, 61, 319
Hpy166II GTNNAC 3 cut(s) 164, 310, 398
Hpy188I TCNGA 3 cut(s) 105, 154, 318
Hpy188III TCNNGA 2 cut(s) 338, 405
Hpy8I GTNNAC 3 cut(s) 164, 310, 398
HpyAV CCTTC 2 cut(s) 76, 195
HpyCH4III ACNGT 1 cut(s) 395
HpyF10VI GCNNNNNNNGC 1 cut(s) 215
HpyF3I CTNAG 3 cut(s) 102, 226, 315
Hsp92II CATG 2 cut(s) 61, 179
KpnI GGTACC 1 cut(s) 9
Kzo9I GATC 4 cut(s) 36, 147, 281, 412
LguI GCTCTTC 1 cut(s) 262
MalI GATC 4 cut(s) 38, 149, 283, 414
MboI GATC 4 cut(s) 36, 147, 281, 412
MboII GAAGA 7 cut(s) 28, 82, 125, 213, 249, 353, 407
MflI RGATCY 1 cut(s) 281
MluCI AATT 4 cut(s) 21, 365, 419, 430
MmeI TCCRAC 1 cut(s) 351
MnlI CCTC 5 cut(s) 182, 220, 229, 235, 378
MroXI GAANNNNTTC 1 cut(s) 201
MseI TTAA 2 cut(s) 297, 429
MslI CAYNNNNRTG 1 cut(s) 143
MspA1I CMGCKG 1 cut(s) 245
MspI CCGG 3 cut(s) 9, 159, 303
MspR9I CCNGG 2 cut(s) 73, 304
MvaI CCWGG 1 cut(s) 73
MwoI GCNNNNNNNGC 1 cut(s) 215
NciI CCSGG 1 cut(s) 304
NcoI CCATGG 1 cut(s) 175
NdeII GATC 4 cut(s) 36, 147, 281, 412
NlaIII CATG 2 cut(s) 61, 179
NlaIV GGNNCC 1 cut(s) 7
PciSI GCTCTTC 1 cut(s) 262
PdmI GAANNNNTTC 1 cut(s) 201
PinAI ACCGGT 1 cut(s) 158
Psp6I CCWGG 1 cut(s) 71
PspGI CCWGG 1 cut(s) 71
PspN4I GGNNCC 1 cut(s) 7
PsuI RGATCY 1 cut(s) 281
PvuII CAGCTG 1 cut(s) 245
RsaI GTAC 2 cut(s) 7, 331
RsaNI GTAC 2 cut(s) 6, 330
RseI CAYNNNNRTG 1 cut(s) 143
SapI GCTCTTC 1 cut(s) 262
SaqAI TTAA 2 cut(s) 297, 429
Sau3AI GATC 4 cut(s) 36, 147, 281, 412
ScrFI CCNGG 2 cut(s) 73, 304
SetI ASST 8 cut(s) 88, 103, 111, 169, 174, 232, 247, 328
SfcI CTRYAG 2 cut(s) 240, 276
SmiMI CAYNNNNRTG 1 cut(s) 143
Sse9I AATT 4 cut(s) 21, 365, 419, 430
SsiI CCGC 2 cut(s) 270, 389
StyD4I CCNGG 2 cut(s) 71, 302
StyI CCWWGG 1 cut(s) 175
TaaI ACNGT 1 cut(s) 395
TaqI TCGA 1 cut(s) 111
TasI AATT 4 cut(s) 21, 365, 419, 430
Tru1I TTAA 2 cut(s) 297, 429
Tru9I TTAA 2 cut(s) 297, 429
TspDTI ATGAA 1 cut(s) 117
XagI CCTNNNNNAGG 1 cut(s) 70
XmnI GAANNNNTTC 1 cut(s) 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.