Rh5CG137400
MADS Family

Agamous-like MADS-box protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5C
OG0000326
Physical Location & Seq
Forward (+)
11488933 .. 11489674
742 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5CG137400.1

Sequence Viewer

Length: 561 bp
ATGGGTCGCAGTAATACAAAGTTGCCTTTGGAACTAATAAAGAATGAGAAGTCGCGCAATGTCACTTTTCGAAAGAGGAAGAAGGGATTGATGAAGAAGACGTATGAATTGAACAAGCTTTGTGATGTGCAGTGTTCTGTTATCATTTATGAGAACAAAAATGGCCAACTGGTCCGGCCGGATACCTATCCTGAAAACCCTGAAGAGGTCAAGCAAATTATTGATAGATTTGTCTCCAAATCAGCCAAAGTAAGGAAAGTTGAAAACTTGGCTGATTTTTTCGGCAAACAAATCATGCAAGTGAAGAAAGAGACTGCCAAATTGCACCAAAGGAACAATGAAGCTCGGTTTCCTTCATGGCATGACATGCTAGATGACTTTTCATTAGATCAATTGCTTGCTCTTTTGAAAAAACTAGAGCACAAAATCGAAGACGTGCACAAGCATTATGATAAGCAATGTGTTATTGATGACAGTATACTACGACAAACGGCCTTGTTTCCAAACAACAACGTAGACTATTCTCAAATGGTTGCATTGAACCAATACCTGGTTCGATGA
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

186

Amino Acids

21.95

Weight (kDa)

9.4

Isoelectric Point (pI)

34.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 13 - 57 8.7e-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)
AccB7I CCANNNNNTGG 1 cut(s) 550
AccI GTMKAC 2 cut(s) 478, 516
AccII CGCG 1 cut(s) 55
AcoI YGGCCR 2 cut(s) 163, 176
AcuI CTGAAG 1 cut(s) 222
AfiI CCNNNNNNNGG 3 cut(s) 205, 252, 550
AgsI TTSAA 4 cut(s) 112, 263, 409, 541
AjiI CACGTC 1 cut(s) 436
AjnI CCWGG 1 cut(s) 549
AjuI GAANNNNNNNTTGG 1 cut(s) 537
AluBI AGCT 2 cut(s) 118, 344
AluI AGCT 2 cut(s) 118, 344
Alw21I GWGCWC 2 cut(s) 423, 441
Alw26I GTCTC 2 cut(s) 238, 305
Alw44I GTGCAC 1 cut(s) 437
AoxI GGCC 3 cut(s) 163, 176, 492
ApaLI GTGCAC 1 cut(s) 437
AspLEI GCGC 1 cut(s) 57
AspS9I GGNCC 1 cut(s) 172
AsuII TTCGAA 1 cut(s) 70
AvaII GGWCC 1 cut(s) 172
BaeGI GKGCMC 1 cut(s) 441
BalI TGGCCA 1 cut(s) 165
BbsI GAAGAC 2 cut(s) 104, 438
Bbv12I GWGCWC 2 cut(s) 423, 441
BceAI ACGGC 1 cut(s) 507
BciT130I CCWGG 1 cut(s) 551
BciVI GTATCC 1 cut(s) 175
BcoDI GTCTC 2 cut(s) 238, 305
BfaI CTAG 2 cut(s) 371, 416
BfuI GTATCC 1 cut(s) 175
Bme1390I CCNGG 1 cut(s) 551
Bme18I GGWCC 1 cut(s) 172
BmgBI CACGTC 1 cut(s) 436
BmgT120I GGNCC 1 cut(s) 172
BmrFI CCNGG 1 cut(s) 551
BpiI GAAGAC 2 cut(s) 104, 438
Bpu14I TTCGAA 1 cut(s) 70
BsaBI GATNNNNATC 1 cut(s) 186
Bsc4I CCNNNNNNNGG 3 cut(s) 205, 252, 550
Bse1I ACTGG 1 cut(s) 174
Bse3DI GCAATG 2 cut(s) 64, 464
Bse8I GATNNNNATC 1 cut(s) 186
BseBI CCWGG 1 cut(s) 551
BseJI GATNNNNATC 1 cut(s) 186
BseLI CCNNNNNNNGG 3 cut(s) 205, 252, 550
BseMI GCAATG 2 cut(s) 64, 464
BseNI ACTGG 1 cut(s) 174
BseSI GKGCMC 1 cut(s) 441
BseX3I CGGCCG 1 cut(s) 176
BsgI GTGCAG 1 cut(s) 149
Bsh1236I CGCG 1 cut(s) 55
Bsh1285I CGRYCG 1 cut(s) 179
BshFI GGCC 3 cut(s) 165, 178, 494
BsiEI CGRYCG 1 cut(s) 179
BsiHKAI GWGCWC 2 cut(s) 423, 441
BsiSI CCGG 2 cut(s) 175, 179
BslI CCNNNNNNNGG 3 cut(s) 205, 252, 550
BsmAI GTCTC 2 cut(s) 238, 305
BsnI GGCC 3 cut(s) 165, 178, 494
Bsp119I TTCGAA 1 cut(s) 70
Bsp1286I GDGCHC 2 cut(s) 423, 441
Bsp143I GATC 1 cut(s) 388
BspANI GGCC 3 cut(s) 165, 178, 494
BspFNI CGCG 1 cut(s) 55
BspT104I TTCGAA 1 cut(s) 70
BsrDI GCAATG 2 cut(s) 64, 464
BsrI ACTGG 1 cut(s) 174
BssMI GATC 1 cut(s) 388
BssNAI GTATAC 1 cut(s) 479
Bst1107I GTATAC 1 cut(s) 479
Bst2UI CCWGG 1 cut(s) 551
Bst4CI ACNGT 1 cut(s) 476
Bst6I CTCTTC 1 cut(s) 198
BstAPI GCANNNNNTGC 1 cut(s) 367
BstBI TTCGAA 1 cut(s) 70
BstC8I GCNNGC 1 cut(s) 399
BstFNI CGCG 1 cut(s) 55
BstHHI GCGC 1 cut(s) 57
BstKTI GATC 1 cut(s) 391
BstMAI GTCTC 2 cut(s) 238, 305
BstMBI GATC 1 cut(s) 388
BstMCI CGRYCG 1 cut(s) 179
BstMWI GCNNNNNNNGC 1 cut(s) 367
BstNI CCWGG 1 cut(s) 551
BstNSI RCATGY 1 cut(s) 370
BstSCI CCNGG 1 cut(s) 549
BstSLI GKGCMC 1 cut(s) 441
BstUI CGCG 1 cut(s) 55
BstV2I GAAGAC 2 cut(s) 104, 438
BstZ17I GTATAC 1 cut(s) 479
BstZI CGGCCG 1 cut(s) 176
BsuI GTATCC 1 cut(s) 175
BsuRI GGCC 3 cut(s) 165, 178, 494
BtrI CACGTC 1 cut(s) 436
BtsI GCAGTG 1 cut(s) 137
BtsIMutI CAGTG 1 cut(s) 137
Cac8I GCNNGC 1 cut(s) 399
CfoI GCGC 1 cut(s) 57
Cfr13I GGNCC 1 cut(s) 172
CsiI ACCWGGT 1 cut(s) 549
CviAII CATG 4 cut(s) 295, 357, 362, 367
CviJI RGCY 7 cut(s) 118, 165, 178, 245, 272, 344, 494
CviKI_1 RGCY 7 cut(s) 118, 165, 178, 245, 272, 344, 494
DpnI GATC 1 cut(s) 390
DpnII GATC 1 cut(s) 388
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
EcoRII CCWGG 1 cut(s) 549
FaeI CATG 4 cut(s) 298, 360, 365, 370
FaiI YATR 8 cut(s) 105, 150, 296, 358, 363, 368, 450, 479
FatI CATG 4 cut(s) 294, 356, 361, 366
FblI GTMKAC 2 cut(s) 478, 516
FspBI CTAG 2 cut(s) 371, 416
GlaI GCGC 1 cut(s) 56
HaeIII GGCC 3 cut(s) 165, 178, 494
HapII CCGG 2 cut(s) 175, 179
HhaI GCGC 1 cut(s) 57
Hin1II CATG 4 cut(s) 298, 360, 365, 370
Hin6I GCGC 1 cut(s) 55
HinP1I GCGC 1 cut(s) 55
HindIII AAGCTT 1 cut(s) 116
HpaII CCGG 2 cut(s) 175, 179
Hpy166II GTNNAC 3 cut(s) 439, 479, 517
Hpy188III TCNNGA 1 cut(s) 191
Hpy8I GTNNAC 3 cut(s) 439, 479, 517
HpyAV CCTTC 2 cut(s) 76, 363
HpyCH4III ACNGT 1 cut(s) 476
HpyCH4IV ACGT 3 cut(s) 101, 435, 513
HpyCH4V TGCA 5 cut(s) 130, 298, 325, 439, 536
HpyF10VI GCNNNNNNNGC 1 cut(s) 367
HpySE526I ACGT 3 cut(s) 101, 435, 513
Hsp92II CATG 4 cut(s) 298, 360, 365, 370
HspAI GCGC 1 cut(s) 55
Kzo9I GATC 1 cut(s) 388
LpnPI CCDG 6 cut(s) 155, 188, 192, 204, 213, 536
MabI ACCWGGT 1 cut(s) 549
MaeI CTAG 2 cut(s) 371, 416
MaeII ACGT 3 cut(s) 101, 435, 513
MaeIII GTNAC 1 cut(s) 61
MalI GATC 1 cut(s) 390
MboI GATC 1 cut(s) 388
MboII GAAGA 6 cut(s) 91, 106, 109, 215, 316, 443
MfeI CAATTG 1 cut(s) 392
MhlI GDGCHC 2 cut(s) 423, 441
MlsI TGGCCA 1 cut(s) 165
MluCI AATT 4 cut(s) 107, 216, 320, 392
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
MslI CAYNNNNRTG 1 cut(s) 299
Msp20I TGGCCA 1 cut(s) 165
MspI CCGG 2 cut(s) 175, 179
MspR9I CCNGG 1 cut(s) 551
MunI CAATTG 1 cut(s) 392
MvaI CCWGG 1 cut(s) 551
MvnI CGCG 1 cut(s) 55
MwoI GCNNNNNNNGC 1 cut(s) 367
NdeII GATC 1 cut(s) 388
NlaIII CATG 4 cut(s) 298, 360, 365, 370
NmuCI GTSAC 1 cut(s) 61
NspI RCATGY 1 cut(s) 370
NspV TTCGAA 1 cut(s) 70
PflMI CCANNNNNTGG 1 cut(s) 550
Psp6I CCWGG 1 cut(s) 549
PspGI CCWGG 1 cut(s) 549
PspPI GGNCC 1 cut(s) 172
RseI CAYNNNNRTG 1 cut(s) 299
Sau3AI GATC 1 cut(s) 388
Sau96I GGNCC 1 cut(s) 172
ScrFI CCNGG 1 cut(s) 551
SduI GDGCHC 2 cut(s) 423, 441
SetI ASST 8 cut(s) 104, 120, 188, 210, 346, 438, 516, 552
SexAI ACCWGGT 1 cut(s) 549
SfuI TTCGAA 1 cut(s) 70
SinI GGWCC 1 cut(s) 172
SmiMI CAYNNNNRTG 1 cut(s) 299
Sse9I AATT 4 cut(s) 107, 216, 320, 392
SspMI CTAG 2 cut(s) 371, 416
StyD4I CCNGG 1 cut(s) 549
TaaI ACNGT 1 cut(s) 476
TaiI ACGT 3 cut(s) 104, 438, 516
TaqI TCGA 3 cut(s) 70, 429, 556
TasI AATT 4 cut(s) 107, 216, 320, 392
TscAI CASTG 1 cut(s) 137
TseFI GTSAC 1 cut(s) 61
Tsp45I GTSAC 1 cut(s) 61
TspDTI ATGAA 5 cut(s) 107, 120, 345, 354, 372
TspRI CASTG 1 cut(s) 137
Van91I CCANNNNNTGG 1 cut(s) 550
VneI GTGCAC 1 cut(s) 437
VpaK11BI GGWCC 1 cut(s) 172
XceI RCATGY 1 cut(s) 370
XmiI GTMKAC 2 cut(s) 478, 516
XspI CTAG 2 cut(s) 371, 416
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.