Rh5DG124800
MADS Family

Agamous-like MADS-box protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0000326
Physical Location & Seq
Forward (+)
11320164 .. 11320469
306 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG124800.1

Sequence Viewer

Length: 306 bp
ATGGGTCGCAGTAATACAAAGTTGCCTTTGGAACTAATAAAGAATGAGAAGTCTCGCAATGTCACTTTTCGAAAGAGGAAGAAGGGATTGATGAAGAAGACGTATGAATTGAACAAGCTTTGTCATGTGCAGTGTTCTGTTATCATTTATGAGAACAAAAATGGCCAACCGGTCCGGCCGGATACCTATCCTGAAAACCCTGAAGAGGTCAAGCAAATTATTGATAGATTTGTCTCCAAATCAGCCAAAGTAAGGAAAGTTGAAAACTTGGCTGATTTTTTCGGCAAACAAATCATGCAAGAGTGA
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

101

Amino Acids

11.87

Weight (kDa)

9.83

Isoelectric Point (pI)

34.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 13 - 57 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
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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)
AcoI YGGCCR 2 cut(s) 163, 176
AcuI CTGAAG 1 cut(s) 222
AfiI CCNNNNNNNGG 2 cut(s) 205, 252
AgeI ACCGGT 1 cut(s) 169
AgsI TTSAA 2 cut(s) 112, 263
AluBI AGCT 1 cut(s) 118
AluI AGCT 1 cut(s) 118
Alw26I GTCTC 2 cut(s) 57, 238
AoxI GGCC 2 cut(s) 163, 176
AsiGI ACCGGT 1 cut(s) 169
AspS9I GGNCC 1 cut(s) 172
AsuII TTCGAA 1 cut(s) 70
AvaII GGWCC 1 cut(s) 172
BalI TGGCCA 1 cut(s) 165
BbsI GAAGAC 1 cut(s) 104
BciVI GTATCC 1 cut(s) 175
BcoDI GTCTC 2 cut(s) 57, 238
BfuI GTATCC 1 cut(s) 175
Bme18I GGWCC 1 cut(s) 172
BmgT120I GGNCC 1 cut(s) 172
BpiI GAAGAC 1 cut(s) 104
Bpu14I TTCGAA 1 cut(s) 70
BsaBI GATNNNNATC 1 cut(s) 186
BsaWI WCCGGW 1 cut(s) 169
Bsc4I CCNNNNNNNGG 2 cut(s) 205, 252
Bse118I RCCGGY 1 cut(s) 169
Bse3DI GCAATG 1 cut(s) 64
Bse8I GATNNNNATC 1 cut(s) 186
BseJI GATNNNNATC 1 cut(s) 186
BseLI CCNNNNNNNGG 2 cut(s) 205, 252
BseMI GCAATG 1 cut(s) 64
BseX3I CGGCCG 1 cut(s) 176
BsgI GTGCAG 1 cut(s) 149
Bsh1285I CGRYCG 1 cut(s) 179
BshFI GGCC 2 cut(s) 165, 178
BshTI ACCGGT 1 cut(s) 169
BsiEI CGRYCG 1 cut(s) 179
BsiSI CCGG 3 cut(s) 170, 175, 179
BslI CCNNNNNNNGG 2 cut(s) 205, 252
BsmAI GTCTC 2 cut(s) 57, 238
BsnI GGCC 2 cut(s) 165, 178
Bsp119I TTCGAA 1 cut(s) 70
BspANI GGCC 2 cut(s) 165, 178
BspT104I TTCGAA 1 cut(s) 70
BsrDI GCAATG 1 cut(s) 64
BsrFI RCCGGY 1 cut(s) 169
BssAI RCCGGY 1 cut(s) 169
Bst6I CTCTTC 1 cut(s) 198
BstBI TTCGAA 1 cut(s) 70
BstMAI GTCTC 2 cut(s) 57, 238
BstMCI CGRYCG 1 cut(s) 179
BstV2I GAAGAC 1 cut(s) 104
BstZI CGGCCG 1 cut(s) 176
BsuI GTATCC 1 cut(s) 175
BsuRI GGCC 2 cut(s) 165, 178
BtsI GCAGTG 1 cut(s) 137
BtsIMutI CAGTG 1 cut(s) 137
Cfr10I RCCGGY 1 cut(s) 169
Cfr13I GGNCC 1 cut(s) 172
CpoI CGGWCCG 1 cut(s) 172
CspAI ACCGGT 1 cut(s) 169
CspI CGGWCCG 1 cut(s) 172
CviAII CATG 2 cut(s) 125, 295
CviJI RGCY 5 cut(s) 118, 165, 178, 245, 272
CviKI_1 RGCY 5 cut(s) 118, 165, 178, 245, 272
EaeI YGGCCR 2 cut(s) 163, 176
EagI CGGCCG 1 cut(s) 176
Eam1104I CTCTTC 1 cut(s) 198
EarI CTCTTC 1 cut(s) 198
EclXI CGGCCG 1 cut(s) 176
Eco47I GGWCC 1 cut(s) 172
Eco52I CGGCCG 1 cut(s) 176
Eco57I CTGAAG 1 cut(s) 222
FaeI CATG 2 cut(s) 128, 298
FaiI YATR 4 cut(s) 105, 126, 150, 296
FatI CATG 2 cut(s) 124, 294
HaeIII GGCC 2 cut(s) 165, 178
HapII CCGG 3 cut(s) 170, 175, 179
Hin1II CATG 2 cut(s) 128, 298
HindIII AAGCTT 1 cut(s) 116
HpaII CCGG 3 cut(s) 170, 175, 179
Hpy188III TCNNGA 1 cut(s) 191
HpyAV CCTTC 1 cut(s) 76
HpyCH4IV ACGT 1 cut(s) 101
HpyCH4V TGCA 2 cut(s) 130, 298
HpySE526I ACGT 1 cut(s) 101
Hsp92II CATG 2 cut(s) 128, 298
LpnPI CCDG 5 cut(s) 183, 188, 192, 204, 213
MaeII ACGT 1 cut(s) 101
MaeIII GTNAC 1 cut(s) 61
MboII GAAGA 4 cut(s) 91, 106, 109, 215
MlsI TGGCCA 1 cut(s) 165
MluCI AATT 2 cut(s) 107, 216
MluNI TGGCCA 1 cut(s) 165
MnlI CCTC 2 cut(s) 69, 199
Mox20I TGGCCA 1 cut(s) 165
MscI TGGCCA 1 cut(s) 165
Msp20I TGGCCA 1 cut(s) 165
MspI CCGG 3 cut(s) 170, 175, 179
NlaIII CATG 2 cut(s) 128, 298
NmuCI GTSAC 1 cut(s) 61
NspV TTCGAA 1 cut(s) 70
PinAI ACCGGT 1 cut(s) 169
PspPI GGNCC 1 cut(s) 172
Rsr2I CGGWCCG 1 cut(s) 172
RsrII CGGWCCG 1 cut(s) 172
Sau96I GGNCC 1 cut(s) 172
SetI ASST 4 cut(s) 104, 120, 188, 210
SfuI TTCGAA 1 cut(s) 70
SinI GGWCC 1 cut(s) 172
Sse9I AATT 2 cut(s) 107, 216
TaiI ACGT 1 cut(s) 104
TaqI TCGA 1 cut(s) 70
TasI AATT 2 cut(s) 107, 216
TscAI CASTG 1 cut(s) 137
TseFI GTSAC 1 cut(s) 61
Tsp45I GTSAC 1 cut(s) 61
TspDTI ATGAA 2 cut(s) 107, 120
TspRI CASTG 1 cut(s) 137
VpaK11BI GGWCC 1 cut(s) 172
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.