RchiOBHm_Chr5g0016461
MADS Family

Agamous-like MADS-box protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000326
Physical Location & Seq
Forward (+)
11318207 .. 11318803
597 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ29683

Sequence Viewer

Length: 597 bp
ATGTTAGTTTTGGTTCGATCACTGATGCATTTTACATATTTTCTATGTATGTTTTCTCAGATCATGGGTCGCAGTAATACAAAGTTGCCTTTGGAACTAATAAAGAATGAGAAGTCGCGCAATGTCACTTTTCGAAAGAGGAAGAAGGGATTGATGAAGAAGACGTATGAATTGAACAAGCTTTGTGATGTGCAGTGTTCTGTTATCATTTATGAGAACAAAAATGGCCAACTGGTCCGGCCGGATACCTATCCTGAAAACCCTGAAGAGGTCAAGCAAATTATTGATAGATTTGTCTCCAAATCAGCCAAAGTAAGGAAAGTTGAAAACTTGGCTGATTTTTTCGGCAAACAAATCATGCAAGTGAAGAAAGAGACTGCCAAATTGCACCAAAGGAACAATGAAGCTCGGTTTCCTTCATGGCATGACATGCTAGATGACTTTTCATTAGATCAATTGCTTGCTCTTTTGAAAAAACTAGAGCACAAAATCGAAGACGTGCACAAGCATTATGATAAGCAATGTGTTATTGATGACAGTATACTACGACAAACGGTGTGTGCTTTTCTATTCTCGTCTTTTAACTTGTTTATTTGA
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
SRF-TF

Protein Analysis

198

Amino Acids

23.45

Weight (kDa)

9.38

Isoelectric Point (pI)

40.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 34 - 78 9.7e-17 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000326)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G18650 AT4G02235 AT4G11250 AT5G26865 AT5G26950 AT5G27050 AT5G27070 AT5G27090 AT5G27090 AT5G27580 AT5G27944 AT5G37415 AT5G37415 AT5G38740 AT5G39750 AT5G39810 AT5G40070 AT5G40120 AT5G40220 AT5G41200 AT5G55690 AT5G55690 AT5G58890 AT5G65330
fragaria_vesca FvH4_2g27520 FvH4_3g19300 FvH4_4g07700 FvH4_4g07700 FvH4_4g07700 FvH4_5g27070 FvH4_6g53490 FvH4_7g04141
malus_domestica MD02G1297800.v1.1 MD15G1430800.v1.1 MD17G1250500.v1.1
prunus_persica Prupe.2G110900_v2.0.a1 Prupe.3G148900_v2.0.a1 Prupe.3G306000_v2.0.a1 Prupe.7G030200_v2.0.a1 Prupe.7G030800_v2.0.a1 Prupe.7G030800_v2.0.a1 Prupe.7G030800_v2.0.a1 Prupe.7G031800_v2.0.a1 Prupe.7G031800_v2.0.a1 Prupe.7G032000_v2.0.a1
pyrus_communis pycom02g25070 pycom06g01170 pycom09g17250 pycom111g00930 pycom15g38080
rosa_chinensis RchiOBHm_Chr2g0175531 RchiOBHm_Chr5g0016461 RchiOBHm_Chr6g0296351
rosa_laevigata RLG00000002414 RLG00000002417 RLG00000009181 RLG00000011703 RLG00000022336 RLG00000029928 RLG00000029934
rosa_multiflora Rmu_co8046860.1_g000001 Rmu_sc0000215.1_g000011 Rmu_sc0000215.1_g000020 Rmu_sc0000379.1_g000004 Rmu_sc0001478.1_g000006 Rmu_sc0002636.1_g000029 Rmu_sc0009440.1_g000006
rosa_roxburghii Rroxscaffold_2G00077230 Rroxscaffold_3G00241440 Rroxscaffold_5G00345600 Rroxscaffold_7G00171600 Rroxscaffold_7G00178500
rosa_rugosa Rorug02G0585900 Rorug04G0025700 Rorug06G0135200 Rorug06G0261200 Rorug06G0261300 Rorug06G0261400 Rorug07G0173300
rosa_samantha Rh1AG091800 Rh1AG093000 Rh1BG072700 Rh1CG088300 Rh1CG089800 Rh1CG090200 Rh1DG095900 Rh2AG665100 Rh2BG675900 Rh2CG639100 Rh2DG689900 Rh4AG103500 Rh4BG098600 Rh4CG111800 Rh4DG095500 Rh5AG126100 Rh5CG137400 Rh5DG124800 Rh5DG124900 Rh6AG373100 Rh6BG381200 Rh6CG386500 Rh6DG374000 Rh7AG315800 Rh7BG306000 Rh7CG333200 Rh7DG314000 Rh7DG314500
rosa_wichuraiana Rw2G054520 Rw4G008380 Rw5G010930 Rw6G032530 Rw7G026670 Rw7G026760

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 541
AccII CGCG 1 cut(s) 118
AcoI YGGCCR 2 cut(s) 226, 239
AcuI CTGAAG 1 cut(s) 285
AfiI CCNNNNNNNGG 2 cut(s) 268, 315
AgsI TTSAA 3 cut(s) 175, 326, 472
AjiI CACGTC 1 cut(s) 499
AluBI AGCT 2 cut(s) 181, 407
AluI AGCT 2 cut(s) 181, 407
Alw21I GWGCWC 2 cut(s) 486, 504
Alw26I GTCTC 2 cut(s) 301, 368
Alw44I GTGCAC 1 cut(s) 500
AoxI GGCC 2 cut(s) 226, 239
ApaLI GTGCAC 1 cut(s) 500
AspLEI GCGC 1 cut(s) 120
AspS9I GGNCC 1 cut(s) 235
AsuII TTCGAA 1 cut(s) 133
AvaII GGWCC 1 cut(s) 235
BaeGI GKGCMC 1 cut(s) 504
BalI TGGCCA 1 cut(s) 228
BbsI GAAGAC 2 cut(s) 167, 501
Bbv12I GWGCWC 2 cut(s) 486, 504
BciVI GTATCC 1 cut(s) 238
BcoDI GTCTC 2 cut(s) 301, 368
BfaI CTAG 2 cut(s) 434, 479
BfuI GTATCC 1 cut(s) 238
Bme18I GGWCC 1 cut(s) 235
BmgBI CACGTC 1 cut(s) 499
BmgT120I GGNCC 1 cut(s) 235
BmsI GCATC 1 cut(s) 15
BpiI GAAGAC 2 cut(s) 167, 501
Bpu14I TTCGAA 1 cut(s) 133
BsaBI GATNNNNATC 1 cut(s) 249
Bsc4I CCNNNNNNNGG 2 cut(s) 268, 315
Bse1I ACTGG 1 cut(s) 237
Bse3DI GCAATG 2 cut(s) 127, 527
Bse8I GATNNNNATC 1 cut(s) 249
BseJI GATNNNNATC 1 cut(s) 249
BseLI CCNNNNNNNGG 2 cut(s) 268, 315
BseMI GCAATG 2 cut(s) 127, 527
BseMII CTCAG 1 cut(s) 71
BseNI ACTGG 1 cut(s) 237
BseSI GKGCMC 1 cut(s) 504
BseX3I CGGCCG 1 cut(s) 239
BsgI GTGCAG 1 cut(s) 212
Bsh1236I CGCG 1 cut(s) 118
Bsh1285I CGRYCG 1 cut(s) 242
BshFI GGCC 2 cut(s) 228, 241
BsiEI CGRYCG 1 cut(s) 242
BsiHKAI GWGCWC 2 cut(s) 486, 504
BsiSI CCGG 2 cut(s) 238, 242
BslI CCNNNNNNNGG 2 cut(s) 268, 315
BsmAI GTCTC 2 cut(s) 301, 368
BsnI GGCC 2 cut(s) 228, 241
Bsp119I TTCGAA 1 cut(s) 133
Bsp1286I GDGCHC 2 cut(s) 486, 504
Bsp143I GATC 3 cut(s) 17, 60, 451
BspANI GGCC 2 cut(s) 228, 241
BspCNI CTCAG 1 cut(s) 70
BspFNI CGCG 1 cut(s) 118
BspT104I TTCGAA 1 cut(s) 133
BsrDI GCAATG 2 cut(s) 127, 527
BsrI ACTGG 1 cut(s) 237
BssMI GATC 3 cut(s) 17, 60, 451
BssNAI GTATAC 1 cut(s) 542
Bst1107I GTATAC 1 cut(s) 542
Bst4CI ACNGT 2 cut(s) 539, 556
Bst6I CTCTTC 1 cut(s) 261
BstAPI GCANNNNNTGC 1 cut(s) 430
BstBI TTCGAA 1 cut(s) 133
BstC8I GCNNGC 1 cut(s) 462
BstDEI CTNAG 1 cut(s) 57
BstFNI CGCG 1 cut(s) 118
BstHHI GCGC 1 cut(s) 120
BstKTI GATC 3 cut(s) 20, 63, 454
BstMAI GTCTC 2 cut(s) 301, 368
BstMBI GATC 3 cut(s) 17, 60, 451
BstMCI CGRYCG 1 cut(s) 242
BstMWI GCNNNNNNNGC 1 cut(s) 430
BstNSI RCATGY 1 cut(s) 433
BstSLI GKGCMC 1 cut(s) 504
BstUI CGCG 1 cut(s) 118
BstV2I GAAGAC 2 cut(s) 167, 501
BstZ17I GTATAC 1 cut(s) 542
BstZI CGGCCG 1 cut(s) 239
BsuI GTATCC 1 cut(s) 238
BsuRI GGCC 2 cut(s) 228, 241
BtrI CACGTC 1 cut(s) 499
BtsI GCAGTG 1 cut(s) 200
BtsIMutI CAGTG 2 cut(s) 20, 200
Cac8I GCNNGC 1 cut(s) 462
CfoI GCGC 1 cut(s) 120
Cfr13I GGNCC 1 cut(s) 235
CviAII CATG 5 cut(s) 64, 358, 420, 425, 430
CviJI RGCY 6 cut(s) 181, 228, 241, 308, 335, 407
CviKI_1 RGCY 6 cut(s) 181, 228, 241, 308, 335, 407
DdeI CTNAG 1 cut(s) 57
DpnI GATC 3 cut(s) 19, 62, 453
DpnII GATC 3 cut(s) 17, 60, 451
EaeI YGGCCR 2 cut(s) 226, 239
EagI CGGCCG 1 cut(s) 239
Eam1104I CTCTTC 1 cut(s) 261
EarI CTCTTC 1 cut(s) 261
EclXI CGGCCG 1 cut(s) 239
Eco47I GGWCC 1 cut(s) 235
Eco52I CGGCCG 1 cut(s) 239
Eco57I CTGAAG 1 cut(s) 285
EcoT22I ATGCAT 1 cut(s) 30
FaeI CATG 5 cut(s) 67, 361, 423, 428, 433
FatI CATG 5 cut(s) 63, 357, 419, 424, 429
FblI GTMKAC 1 cut(s) 541
FspBI CTAG 2 cut(s) 434, 479
GlaI GCGC 1 cut(s) 119
HaeIII GGCC 2 cut(s) 228, 241
HapII CCGG 2 cut(s) 238, 242
HhaI GCGC 1 cut(s) 120
Hin1II CATG 5 cut(s) 67, 361, 423, 428, 433
Hin6I GCGC 1 cut(s) 118
HinP1I GCGC 1 cut(s) 118
HindIII AAGCTT 1 cut(s) 179
HpaII CCGG 2 cut(s) 238, 242
Hpy166II GTNNAC 2 cut(s) 502, 542
Hpy188I TCNGA 1 cut(s) 60
Hpy188III TCNNGA 1 cut(s) 254
Hpy8I GTNNAC 2 cut(s) 502, 542
HpyAV CCTTC 2 cut(s) 139, 426
HpyCH4III ACNGT 2 cut(s) 539, 556
HpyCH4IV ACGT 2 cut(s) 164, 498
HpyCH4V TGCA 5 cut(s) 28, 193, 361, 388, 502
HpyF10VI GCNNNNNNNGC 1 cut(s) 430
HpyF3I CTNAG 1 cut(s) 57
HpySE526I ACGT 2 cut(s) 164, 498
Hsp92II CATG 5 cut(s) 67, 361, 423, 428, 433
HspAI GCGC 1 cut(s) 118
Kzo9I GATC 3 cut(s) 17, 60, 451
LpnPI CCDG 5 cut(s) 218, 251, 255, 267, 276
LweI GCATC 1 cut(s) 15
MaeI CTAG 2 cut(s) 434, 479
MaeII ACGT 2 cut(s) 164, 498
MaeIII GTNAC 1 cut(s) 124
MalI GATC 3 cut(s) 19, 62, 453
MboI GATC 3 cut(s) 17, 60, 451
MboII GAAGA 6 cut(s) 154, 169, 172, 278, 379, 506
MfeI CAATTG 1 cut(s) 455
MhlI GDGCHC 2 cut(s) 486, 504
MlsI TGGCCA 1 cut(s) 228
MluCI AATT 4 cut(s) 170, 279, 383, 455
MluNI TGGCCA 1 cut(s) 228
MnlI CCTC 2 cut(s) 132, 262
Mox20I TGGCCA 1 cut(s) 228
Mph1103I ATGCAT 1 cut(s) 30
MscI TGGCCA 1 cut(s) 228
MseI TTAA 1 cut(s) 582
MslI CAYNNNNRTG 1 cut(s) 362
Msp20I TGGCCA 1 cut(s) 228
MspI CCGG 2 cut(s) 238, 242
MunI CAATTG 1 cut(s) 455
MvnI CGCG 1 cut(s) 118
MwoI GCNNNNNNNGC 1 cut(s) 430
NdeII GATC 3 cut(s) 17, 60, 451
NlaIII CATG 5 cut(s) 67, 361, 423, 428, 433
NmuCI GTSAC 1 cut(s) 124
NsiI ATGCAT 1 cut(s) 30
NspI RCATGY 1 cut(s) 433
NspV TTCGAA 1 cut(s) 133
PspPI GGNCC 1 cut(s) 235
RseI CAYNNNNRTG 1 cut(s) 362
SaqAI TTAA 1 cut(s) 582
Sau3AI GATC 3 cut(s) 17, 60, 451
Sau96I GGNCC 1 cut(s) 235
SduI GDGCHC 2 cut(s) 486, 504
SetI ASST 6 cut(s) 167, 183, 251, 273, 409, 501
SfaNI GCATC 1 cut(s) 15
SfuI TTCGAA 1 cut(s) 133
SinI GGWCC 1 cut(s) 235
SmiMI CAYNNNNRTG 1 cut(s) 362
Sse9I AATT 4 cut(s) 170, 279, 383, 455
SspMI CTAG 2 cut(s) 434, 479
TaaI ACNGT 2 cut(s) 539, 556
TaiI ACGT 2 cut(s) 167, 501
TaqI TCGA 3 cut(s) 16, 133, 492
TasI AATT 4 cut(s) 170, 279, 383, 455
Tru1I TTAA 1 cut(s) 582
Tru9I TTAA 1 cut(s) 582
TscAI CASTG 2 cut(s) 27, 200
TseFI GTSAC 1 cut(s) 124
Tsp45I GTSAC 1 cut(s) 124
TspDTI ATGAA 5 cut(s) 170, 183, 408, 417, 435
TspRI CASTG 2 cut(s) 27, 200
VneI GTGCAC 1 cut(s) 500
VpaK11BI GGWCC 1 cut(s) 235
XceI RCATGY 1 cut(s) 433
XmiI GTMKAC 1 cut(s) 541
XspI CTAG 2 cut(s) 434, 479
Zsp2I ATGCAT 1 cut(s) 30
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.