pycom15g08960

Rhomboid family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr15
OG0012141
Physical Location & Seq
Forward (+)
5765727 .. 5767646
1920 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 900 bp
ATGTCCCAGTTTCTGCTCCAGCTCCAGCATCTTCAAACGCTCACTAAACCCGGCAAACTCCAATTCGTACCCAACACTTGCTTCTCTCACCATCCCAACCTCACTCTCAAGTTTCCCCCCAACCACACCAAACCCAGCAAACTCCACCTCTCTCTCCGCCCCCTTCTTCCCGCCACCGCTCGATCCCCCATAATAGTCTGCAAATCCAACGGCTCAGACAGCCTAGACTTAGATGTTCTATCACGGCCAGAAGAGCGAGGGAAGCCGCACCGACGCGCCAACGGAATATTTTGGATTATACTTGCTAACATTGGGATTTACTTAGCTGATCATGTGTTCCAGGTTCGCGCGATTAAAATGCTCTACTTGTACCACAATTGGCCTACATGGTACCAGTTTCTAACAGCAACATTCTGTCATGCTAATTGGAGCCATCTCTCGAGCAACCTCTTCTTCTTGTATATTTTTGGTAAGCTAGTTGAAGAAGAGGAAGGGAATTTTGCTCTGTGGCTTTGTTATATTCTTACCGGTGTTGGAGCAAACCTTGTATCGTGGCTTGTTCTACCACGAAATGCAGTTTCAGTTGGAGCCTCTGGTGCTGTTTTTGGATTATTTACCATTAGTGTGCTTGTAAAGATGTCTTGGGACTGGAGGAAGATCCTTGAAGTGCTTATATTGGGCCAATTTGTTGTAGAAAAGGTTATGGAAGCAGCCCAAGCTTCTACTGCATTATCGGGCACCTTTGGCAGAAATTCGTTGATGAATGTCAATCACATTGCCCATCTCTCAGGTGCTCTTGTTGGTGTTTTTCTGGTATGGATTCTCAGCAAGGTTCCTTCTGAACCCCCATCACAAGAAGGATCGAATTTCCAAAGCAAAGCAGGCAGAACTCGATTATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0003674 GO:0005488 GO:0005515 GO:0019904
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Rhomboid

Protein Analysis

300

Amino Acids

33.52

Weight (kDa)

9.61

Isoelectric Point (pI)

42.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhomboid PF01694 129 - 277 7e-28 Rhomboid 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: OG0012141)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G25640
fragaria_vesca FvH4_2g36120 FvH4_2g36120 FvH4_2g36120 FvH4_2g36120
malus_domestica MD15G1097700.v1.1
prunus_persica Prupe.1G452600_v2.0.a1
pyrus_communis pycom08g09880 pycom15g08960
rosa_chinensis RchiOBHm_Chr6g0305751
rosa_laevigata RLG00000010862
rosa_multiflora Rmu_sc0042960.1_g000002
rosa_roxburghii Rroxscaffold_7G00162380
rosa_rugosa Rorug06G0343900.1
rosa_samantha Rh6AG455300 Rh6BG446000 Rh6CG469200 Rh6DG455800
rosa_wichuraiana Rw6G039720

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 898
Acc65I GGTACC 1 cut(s) 390
AccB1I GGYRCC 2 cut(s) 390, 737
AccBSI CCGCTC 1 cut(s) 179
AccII CGCG 3 cut(s) 276, 348, 350
AciI CCGC 4 cut(s) 157, 171, 177, 266
AclWI GGATC 3 cut(s) 177, 652, 868
AcoI YGGCCR 1 cut(s) 245
AcsI RAATTY 3 cut(s) 496, 751, 865
AfaI GTAC 3 cut(s) 69, 371, 392
AgeI ACCGGT 1 cut(s) 527
AgsI TTSAA 3 cut(s) 35, 482, 665
AjnI CCWGG 1 cut(s) 339
AjuI GAANNNNNNNTTGG 2 cut(s) 65, 97
AluBI AGCT 4 cut(s) 22, 326, 475, 719
AluI AGCT 4 cut(s) 22, 326, 475, 719
Alw21I GWGCWC 1 cut(s) 796
AlwI GGATC 3 cut(s) 177, 652, 868
AlwNI CAGNNNCTG 1 cut(s) 13
Ama87I CYCGRG 1 cut(s) 439
AoxI GGCC 3 cut(s) 245, 380, 679
ApeKI GCWGC 1 cut(s) 710
ApoI RAATTY 3 cut(s) 496, 751, 865
AsiGI ACCGGT 1 cut(s) 527
Asp718I GGTACC 1 cut(s) 390
AspLEI GCGC 2 cut(s) 278, 350
AspS9I GGNCC 1 cut(s) 679
AsuC2I CCSGG 1 cut(s) 51
AsuHPI GGTGA 1 cut(s) 80
AvaI CYCGRG 1 cut(s) 439
BaeGI GKGCMC 1 cut(s) 740
BanI GGYRCC 2 cut(s) 390, 737
Bbv12I GWGCWC 1 cut(s) 796
BbvI GCAGC 1 cut(s) 722
BccI CCATC 4 cut(s) 99, 441, 789, 856
BceAI ACGGC 2 cut(s) 226, 260
BcgI CGANNNNNNTGC 2 cut(s) 340, 374
BciT130I CCWGG 1 cut(s) 341
BclI TGATCA 1 cut(s) 328
BcnI CCSGG 1 cut(s) 51
BfaI CTAG 2 cut(s) 224, 476
BisI GCNGC 2 cut(s) 266, 711
BlsI GCNGC 2 cut(s) 267, 712
Bme1390I CCNGG 2 cut(s) 51, 341
BmeT110I CYCGRG 1 cut(s) 439
BmgT120I GGNCC 1 cut(s) 679
BmiI GGNNCC 5 cut(s) 392, 431, 589, 739, 834
BmrFI CCNGG 2 cut(s) 51, 341
BmsI GCATC 1 cut(s) 37
BpmI CTGGAG 2 cut(s) 8, 670
BpuEI CTTGAG 1 cut(s) 92
BpuMI CCSGG 1 cut(s) 51
BsaWI WCCGGW 1 cut(s) 527
Bse118I RCCGGY 1 cut(s) 527
Bse1I ACTGG 3 cut(s) 7, 394, 653
Bse3DI GCAATG 1 cut(s) 774
BseBI CCWGG 1 cut(s) 341
BseGI GGATG 1 cut(s) 91
BseMI GCAATG 1 cut(s) 774
BseMII CTCAG 3 cut(s) 228, 801, 838
BseNI ACTGG 3 cut(s) 7, 394, 653
BseSI GKGCMC 1 cut(s) 740
BseXI GCAGC 1 cut(s) 722
BseYI CCCAGC 1 cut(s) 134
Bsh1236I CGCG 3 cut(s) 276, 348, 350
BshFI GGCC 3 cut(s) 247, 382, 681
BshNI GGYRCC 2 cut(s) 390, 737
BshTI ACCGGT 1 cut(s) 527
BsiHKAI GWGCWC 1 cut(s) 796
BsiHKCI CYCGRG 1 cut(s) 439
BsiSI CCGG 2 cut(s) 51, 528
BslFI GGGAC 1 cut(s) 659
BsmFI GGGAC 1 cut(s) 659
BsnI GGCC 3 cut(s) 247, 382, 681
BsoBI CYCGRG 1 cut(s) 439
Bsp1286I GDGCHC 2 cut(s) 740, 796
Bsp143I GATC 4 cut(s) 182, 328, 657, 860
BspACI CCGC 4 cut(s) 157, 171, 177, 266
BspANI GGCC 3 cut(s) 247, 382, 681
BspCNI CTCAG 3 cut(s) 227, 800, 837
BspFNI CGCG 3 cut(s) 276, 348, 350
BspLI GGNNCC 5 cut(s) 392, 431, 589, 739, 834
BspPI GGATC 3 cut(s) 177, 652, 868
BspQI GCTCTTC 1 cut(s) 246
BspT107I GGYRCC 2 cut(s) 390, 737
BsrBI CCGCTC 1 cut(s) 179
BsrDI GCAATG 1 cut(s) 774
BsrFI RCCGGY 1 cut(s) 527
BsrI ACTGG 3 cut(s) 7, 394, 653
BssAI RCCGGY 1 cut(s) 527
BssMI GATC 4 cut(s) 182, 328, 657, 860
Bst2UI CCWGG 1 cut(s) 341
Bst6I CTCTTC 3 cut(s) 246, 455, 480
BstC8I GCNNGC 1 cut(s) 883
BstDEI CTNAG 5 cut(s) 214, 229, 322, 787, 824
BstF5I GGATG 1 cut(s) 91
BstFNI CGCG 3 cut(s) 276, 348, 350
BstHHI GCGC 2 cut(s) 278, 350
BstKTI GATC 4 cut(s) 185, 331, 660, 863
BstMBI GATC 4 cut(s) 182, 328, 657, 860
BstMWI GCNNNNNNNGC 8 cut(s) 219, 253, 262, 596, 716, 725, 744, 882
BstNI CCWGG 1 cut(s) 341
BstSCI CCNGG 2 cut(s) 49, 339
BstSLI GKGCMC 1 cut(s) 740
BstUI CGCG 3 cut(s) 276, 348, 350
BstV1I GCAGC 1 cut(s) 722
BstX2I RGATCY 1 cut(s) 657
BstYI RGATCY 1 cut(s) 657
BsuRI GGCC 3 cut(s) 247, 382, 681
BtsCI GGATG 1 cut(s) 91
Cac8I GCNNGC 1 cut(s) 883
CaiI CAGNNNCTG 1 cut(s) 13
CfoI GCGC 2 cut(s) 278, 350
Cfr10I RCCGGY 1 cut(s) 527
Cfr13I GGNCC 1 cut(s) 679
CseI GACGC 1 cut(s) 282
Csp6I GTAC 3 cut(s) 68, 370, 391
CspAI ACCGGT 1 cut(s) 527
CviAII CATG 3 cut(s) 332, 387, 419
CviQI GTAC 3 cut(s) 68, 370, 391
DdeI CTNAG 5 cut(s) 214, 229, 322, 787, 824
DpnI GATC 4 cut(s) 184, 330, 659, 862
DpnII GATC 4 cut(s) 182, 328, 657, 860
EaeI YGGCCR 1 cut(s) 245
Eam1104I CTCTTC 3 cut(s) 246, 455, 480
EarI CTCTTC 3 cut(s) 246, 455, 480
EciI GGCGGA 1 cut(s) 146
Eco88I CYCGRG 1 cut(s) 439
EcoRII CCWGG 1 cut(s) 339
FaeI CATG 3 cut(s) 335, 390, 422
FaqI GGGAC 1 cut(s) 659
FatI CATG 3 cut(s) 331, 386, 418
FauI CCCGC 1 cut(s) 178
FbaI TGATCA 1 cut(s) 328
Fnu4HI GCNGC 2 cut(s) 266, 711
FokI GGATG 1 cut(s) 78
Fsp4HI GCNGC 2 cut(s) 266, 711
FspBI CTAG 2 cut(s) 224, 476
GlaI GCGC 2 cut(s) 277, 349
GluI GCNGC 2 cut(s) 266, 711
GsaI CCCAGC 1 cut(s) 138
GsuI CTGGAG 2 cut(s) 8, 670
HaeIII GGCC 3 cut(s) 247, 382, 681
HapII CCGG 2 cut(s) 51, 528
HgaI GACGC 1 cut(s) 282
HhaI GCGC 2 cut(s) 278, 350
Hin1II CATG 3 cut(s) 335, 390, 422
Hin6I GCGC 2 cut(s) 276, 348
HinP1I GCGC 2 cut(s) 276, 348
HindIII AAGCTT 1 cut(s) 717
HinfI GANTC 1 cut(s) 820
HpaII CCGG 2 cut(s) 51, 528
HphI GGTGA 1 cut(s) 80
Hpy188I TCNGA 2 cut(s) 217, 841
Hpy188III TCNNGA 1 cut(s) 439
Hpy99I CGWCG 1 cut(s) 276
HpyAV CCTTC 4 cut(s) 173, 485, 846, 851
HpyCH4V TGCA 3 cut(s) 201, 575, 728
HpyF10VI GCNNNNNNNGC 8 cut(s) 219, 253, 262, 596, 716, 725, 744, 882
HpyF3I CTNAG 5 cut(s) 214, 229, 322, 787, 824
Hsp92II CATG 3 cut(s) 335, 390, 422
HspAI GCGC 2 cut(s) 276, 348
KpnI GGTACC 1 cut(s) 394
Ksp22I TGATCA 1 cut(s) 328
Kzo9I GATC 4 cut(s) 182, 328, 657, 860
LguI GCTCTTC 1 cut(s) 246
LmnI GCTCC 5 cut(s) 21, 27, 429, 536, 587
Lsp1109I GCAGC 1 cut(s) 722
LweI GCATC 1 cut(s) 37
MaeI CTAG 2 cut(s) 224, 476
MalI GATC 4 cut(s) 184, 330, 659, 862
MbiI CCGCTC 1 cut(s) 179
MboI GATC 4 cut(s) 182, 328, 657, 860
MboII GAAGA 8 cut(s) 23, 158, 263, 442, 445, 494, 497, 667
MfeI CAATTG 1 cut(s) 376
MflI RGATCY 1 cut(s) 657
MhlI GDGCHC 2 cut(s) 740, 796
MluCI AATT 7 cut(s) 62, 376, 424, 496, 683, 751, 865
MmeI TCCRAC 3 cut(s) 231, 514, 565
MnlI CCTC 7 cut(s) 110, 158, 251, 458, 481, 601, 645
MseI TTAA 1 cut(s) 354
MslI CAYNNNNRTG 1 cut(s) 623
MspI CCGG 2 cut(s) 51, 528
MspR9I CCNGG 2 cut(s) 51, 341
MunI CAATTG 1 cut(s) 376
MvaI CCWGG 1 cut(s) 341
MvnI CGCG 3 cut(s) 276, 348, 350
MwoI GCNNNNNNNGC 8 cut(s) 219, 253, 262, 596, 716, 725, 744, 882
NciI CCSGG 1 cut(s) 51
NdeII GATC 4 cut(s) 182, 328, 657, 860
NlaIII CATG 3 cut(s) 335, 390, 422
NlaIV GGNNCC 5 cut(s) 392, 431, 589, 739, 834
PaeR7I CTCGAG 1 cut(s) 439
PciSI GCTCTTC 1 cut(s) 246
PfeI GAWTC 1 cut(s) 820
PinAI ACCGGT 1 cut(s) 527
PkrI GCNGC 2 cut(s) 267, 712
PsiI TTATAA 1 cut(s) 898
Psp6I CCWGG 1 cut(s) 339
PspFI CCCAGC 1 cut(s) 134
PspGI CCWGG 1 cut(s) 339
PspN4I GGNNCC 5 cut(s) 392, 431, 589, 739, 834
PspPI GGNCC 1 cut(s) 679
PstNI CAGNNNCTG 1 cut(s) 13
PsuI RGATCY 1 cut(s) 657
RsaI GTAC 3 cut(s) 69, 371, 392
RsaNI GTAC 3 cut(s) 68, 370, 391
RseI CAYNNNNRTG 1 cut(s) 623
SapI GCTCTTC 1 cut(s) 246
SaqAI TTAA 1 cut(s) 354
SatI GCNGC 2 cut(s) 266, 711
Sau3AI GATC 4 cut(s) 182, 328, 657, 860
Sau96I GGNCC 1 cut(s) 679
ScrFI CCNGG 2 cut(s) 51, 341
SduI GDGCHC 2 cut(s) 740, 796
SfaNI GCATC 1 cut(s) 37
Sfr274I CTCGAG 1 cut(s) 439
SlaI CTCGAG 1 cut(s) 439
SmiMI CAYNNNNRTG 1 cut(s) 623
SmlI CTYRAG 2 cut(s) 107, 439
SmoI CTYRAG 2 cut(s) 107, 439
Sse9I AATT 7 cut(s) 62, 376, 424, 496, 683, 751, 865
SsiI CCGC 4 cut(s) 157, 171, 177, 266
SspI AATATT 1 cut(s) 288
SspMI CTAG 2 cut(s) 224, 476
StyD4I CCNGG 2 cut(s) 49, 339
TaqI TCGA 4 cut(s) 181, 440, 863, 892
TasI AATT 7 cut(s) 62, 376, 424, 496, 683, 751, 865
TauI GCSGC 1 cut(s) 268
TfiI GAWTC 1 cut(s) 820
Tru1I TTAA 1 cut(s) 354
Tru9I TTAA 1 cut(s) 354
TseI GCWGC 1 cut(s) 710
TspDTI ATGAA 1 cut(s) 776
TspGWI ACGGA 1 cut(s) 297
XapI RAATTY 3 cut(s) 496, 751, 865
XhoI CTCGAG 1 cut(s) 439
XspI CTAG 2 cut(s) 224, 476
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.