Rroxscaffold_5G00370960

Possible membrane-associated motif in LPS-induced tumor necrosis factor alpha factor (LITAF), also known as PIG7, and other animal proteins.

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0012424
Physical Location & Seq
Forward (+)
52615691 .. 52616596
906 bp
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UTR
Exon/CDS
Intron
Rroxscaffold_5G00370960.1

Sequence Viewer

Length: 468 bp
ATGCAAGGATACCCTCCACCACCGCATCAGGCGAAGATGTCGAAGATGCCGCCGCAGCAGCAACCGCCGGTGATGGGAGAGCCGGTGATGGGAGTCCCCTACTACGTCCACGAGAATCCCTACCAGGCCGGCATGGTTCCACCCAACGCCATTTACGGCGACCCAAAAGGAGTTCCGCTTAAACAAACCATCTACAGAGACACTCCCGCTCCTTTCAACTGCCTTTACTGCGGCGACACCGGACTCACCCAAGTCAGATCAAAGCCGAGTCTGGCATCTGTTGTGGGGTGTTTGATGTGTTGTGGTTGTGGGTTCTGCTTTCTTTTGCGTTCCATGGACTGCCTCTGGCATAAGTACCATTATTGCTCACACTGCCACCAAAAGGTTGCTGAATTTGAGAAGTCTGATCCTTGTATTGTGATGGACCCTCCTAACTGGACAGAAGCCAGCTTTGCAGTGCCTGCATGA

Protein Analysis

155

Amino Acids

17.21

Weight (kDa)

6.96

Isoelectric Point (pI)

61.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-LITAF-like PF10601 67 - 131 2.8e-12 LITAF-like zinc ribbon domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0012424)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G13190 AT5G13190
fragaria_vesca FvH4_4g23080 FvH4_4g23080
malus_domestica MD13G1126300.v1.1 MD16G1126800.v1.1
prunus_persica Prupe.1G219100_v2.0.a1
pyrus_communis pycom13g10980 pycom16g10760
rosa_chinensis RchiOBHm_Chr4g0429351
rosa_multiflora Rmu_sc0003708.1_g000047 Rmu_sc0003904.1_g000002
rosa_roxburghii Rroxscaffold_5G00370960
rosa_rugosa Rorug04G0235200
rosa_samantha Rh4AG291000 Rh4BG296900 Rh4CG312400 Rh4DG293800
rosa_wichuraiana Rw4G025200

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 209
AciI CCGC 7 cut(s) 23, 50, 53, 65, 176, 207, 231
AclWI GGATC 1 cut(s) 401
AcsI RAATTY 1 cut(s) 392
AfaI GTAC 1 cut(s) 356
AfiI CCNNNNNNNGG 3 cut(s) 74, 89, 382
AgsI TTSAA 1 cut(s) 217
AjnI CCWGG 1 cut(s) 123
AluBI AGCT 1 cut(s) 450
AluI AGCT 1 cut(s) 450
Alw26I GTCTC 1 cut(s) 192
AlwI GGATC 1 cut(s) 401
AlwNI CAGNNNCTG 1 cut(s) 461
AoxI GGCC 1 cut(s) 126
ApeKI GCWGC 2 cut(s) 55, 58
ApoI RAATTY 1 cut(s) 392
AspS9I GGNCC 1 cut(s) 424
AsuHPI GGTGA 3 cut(s) 82, 97, 238
AvaII GGWCC 1 cut(s) 424
BauI CACGAG 1 cut(s) 110
BbvI GCAGC 2 cut(s) 67, 70
BccI CCATC 4 cut(s) 67, 82, 197, 415
BceAI ACGGC 1 cut(s) 172
BciT130I CCWGG 1 cut(s) 125
BcoDI GTCTC 1 cut(s) 192
BfmI CTRYAG 1 cut(s) 193
BisI GCNGC 5 cut(s) 50, 53, 56, 59, 232
BlsI GCNGC 5 cut(s) 51, 54, 57, 60, 233
Bme1390I CCNGG 1 cut(s) 125
Bme18I GGWCC 1 cut(s) 424
BmgT120I GGNCC 1 cut(s) 424
BmiI GGNNCC 2 cut(s) 138, 426
BmrFI CCNGG 1 cut(s) 125
BmsI GCATC 3 cut(s) 34, 36, 284
BsaJI CCNNGG 1 cut(s) 333
BsaWI WCCGGW 1 cut(s) 239
BsaXI ACNNNNNCTCC 4 cut(s) 69, 99, 193, 223
Bsc4I CCNNNNNNNGG 3 cut(s) 74, 89, 382
Bse118I RCCGGY 3 cut(s) 67, 82, 128
Bse1I ACTGG 1 cut(s) 440
BseBI CCWGG 1 cut(s) 125
BseDI CCNNGG 1 cut(s) 333
BseLI CCNNNNNNNGG 3 cut(s) 74, 89, 382
BseNI ACTGG 1 cut(s) 440
BseXI GCAGC 2 cut(s) 67, 70
BshFI GGCC 1 cut(s) 128
BsiSI CCGG 4 cut(s) 68, 83, 129, 240
BslFI GGGAC 1 cut(s) 80
BslI CCNNNNNNNGG 3 cut(s) 74, 89, 382
BsmAI GTCTC 1 cut(s) 192
BsmFI GGGAC 1 cut(s) 80
BsnI GGCC 1 cut(s) 128
Bsp143I GATC 2 cut(s) 257, 406
Bsp19I CCATGG 1 cut(s) 333
BspACI CCGC 7 cut(s) 23, 50, 53, 65, 176, 207, 231
BspANI GGCC 1 cut(s) 128
BspLI GGNNCC 2 cut(s) 138, 426
BspPI GGATC 1 cut(s) 401
BsrBI CCGCTC 1 cut(s) 209
BsrFI RCCGGY 3 cut(s) 67, 82, 128
BsrI ACTGG 1 cut(s) 440
BssAI RCCGGY 3 cut(s) 67, 82, 128
BssECI CCNNGG 1 cut(s) 333
BssMI GATC 2 cut(s) 257, 406
BssSI CACGAG 1 cut(s) 110
BssT1I CCWWGG 1 cut(s) 333
Bst2BI CACGAG 1 cut(s) 110
Bst2UI CCWGG 1 cut(s) 125
BstAPI GCANNNNNTGC 1 cut(s) 461
BstC8I GCNNGC 3 cut(s) 130, 448, 462
BstDSI CCRYGG 1 cut(s) 333
BstKTI GATC 2 cut(s) 260, 409
BstMAI GTCTC 1 cut(s) 192
BstMBI GATC 2 cut(s) 257, 406
BstMWI GCNNNNNNNGC 7 cut(s) 55, 58, 64, 228, 372, 452, 461
BstNI CCWGG 1 cut(s) 125
BstSCI CCNGG 1 cut(s) 123
BstSFI CTRYAG 1 cut(s) 193
BstV1I GCAGC 2 cut(s) 67, 70
BsuRI GGCC 1 cut(s) 128
BtgI CCRYGG 1 cut(s) 333
BtsI GCAGTG 2 cut(s) 370, 462
BtsIMutI CAGTG 2 cut(s) 370, 462
Cac8I GCNNGC 3 cut(s) 130, 448, 462
CaiI CAGNNNCTG 1 cut(s) 461
Cfr10I RCCGGY 3 cut(s) 67, 82, 128
Cfr13I GGNCC 1 cut(s) 424
Csp6I GTAC 1 cut(s) 355
CviAII CATG 3 cut(s) 133, 334, 465
CviJI RGCY 5 cut(s) 82, 128, 265, 446, 450
CviKI_1 RGCY 5 cut(s) 82, 128, 265, 446, 450
CviQI GTAC 1 cut(s) 355
DpnI GATC 2 cut(s) 259, 408
DpnII GATC 2 cut(s) 257, 406
Eco130I CCWWGG 1 cut(s) 333
Eco47I GGWCC 1 cut(s) 424
EcoRII CCWGG 1 cut(s) 123
EcoT14I CCWWGG 1 cut(s) 333
ErhI CCWWGG 1 cut(s) 333
FaeI CATG 3 cut(s) 136, 337, 468
FaiI YATR 4 cut(s) 134, 335, 351, 466
FaqI GGGAC 1 cut(s) 80
FatI CATG 3 cut(s) 132, 333, 464
FauI CCCGC 1 cut(s) 214
Fnu4HI GCNGC 5 cut(s) 50, 53, 56, 59, 232
Fsp4HI GCNGC 5 cut(s) 50, 53, 56, 59, 232
GluI GCNGC 5 cut(s) 50, 53, 56, 59, 232
HaeIII GGCC 1 cut(s) 128
HapII CCGG 4 cut(s) 68, 83, 129, 240
Hin1II CATG 3 cut(s) 136, 337, 468
HinfI GANTC 4 cut(s) 93, 115, 243, 268
HpaII CCGG 4 cut(s) 68, 83, 129, 240
HphI GGTGA 3 cut(s) 82, 97, 238
Hpy166II GTNNAC 1 cut(s) 109
Hpy188I TCNGA 2 cut(s) 257, 406
Hpy8I GTNNAC 1 cut(s) 109
HpyCH4IV ACGT 1 cut(s) 105
HpyCH4V TGCA 3 cut(s) 4, 455, 464
HpyF10VI GCNNNNNNNGC 7 cut(s) 55, 58, 64, 228, 372, 452, 461
HpySE526I ACGT 1 cut(s) 105
Hsp92II CATG 3 cut(s) 136, 337, 468
KroI GCCGGC 1 cut(s) 128
KroNI GCCGGC 1 cut(s) 130
Kzo9I GATC 2 cut(s) 257, 406
LmnI GCTCC 1 cut(s) 214
Lsp1109I GCAGC 2 cut(s) 67, 70
LweI GCATC 3 cut(s) 34, 36, 284
MaeII ACGT 1 cut(s) 105
MalI GATC 2 cut(s) 259, 408
MbiI CCGCTC 1 cut(s) 209
MboI GATC 2 cut(s) 257, 406
MboII GAAGA 2 cut(s) 46, 55
MluCI AATT 1 cut(s) 392
MlyI GAGTC 3 cut(s) 102, 237, 277
MnlI CCTC 3 cut(s) 24, 353, 438
MroNI GCCGGC 1 cut(s) 128
MseI TTAA 1 cut(s) 180
MspI CCGG 4 cut(s) 68, 83, 129, 240
MspR9I CCNGG 1 cut(s) 125
MvaI CCWGG 1 cut(s) 125
MwoI GCNNNNNNNGC 7 cut(s) 55, 58, 64, 228, 372, 452, 461
NaeI GCCGGC 1 cut(s) 130
NcoI CCATGG 1 cut(s) 333
NdeII GATC 2 cut(s) 257, 406
NgoMIV GCCGGC 1 cut(s) 128
NlaIII CATG 3 cut(s) 136, 337, 468
NlaIV GGNNCC 2 cut(s) 138, 426
NmeAIII GCCGAG 1 cut(s) 291
PdiI GCCGGC 1 cut(s) 130
PfeI GAWTC 1 cut(s) 115
PkrI GCNGC 5 cut(s) 51, 54, 57, 60, 233
PleI GAGTC 3 cut(s) 101, 237, 276
PpsI GAGTC 3 cut(s) 101, 237, 276
Psp6I CCWGG 1 cut(s) 123
PspGI CCWGG 1 cut(s) 123
PspN4I GGNNCC 2 cut(s) 138, 426
PspPI GGNCC 1 cut(s) 424
PstNI CAGNNNCTG 1 cut(s) 461
RsaI GTAC 1 cut(s) 356
RsaNI GTAC 1 cut(s) 355
SaqAI TTAA 1 cut(s) 180
SatI GCNGC 5 cut(s) 50, 53, 56, 59, 232
Sau3AI GATC 2 cut(s) 257, 406
Sau96I GGNCC 1 cut(s) 424
SchI GAGTC 3 cut(s) 102, 237, 277
ScrFI CCNGG 1 cut(s) 125
SetI ASST 3 cut(s) 108, 387, 452
SfaNI GCATC 3 cut(s) 34, 36, 284
SfcI CTRYAG 1 cut(s) 193
SgrAI CRCCGGYG 1 cut(s) 67
SinI GGWCC 1 cut(s) 424
Sse9I AATT 1 cut(s) 392
SsiI CCGC 7 cut(s) 23, 50, 53, 65, 176, 207, 231
StyD4I CCNGG 1 cut(s) 123
StyI CCWWGG 1 cut(s) 333
TaiI ACGT 1 cut(s) 108
TaqI TCGA 1 cut(s) 41
TasI AATT 1 cut(s) 392
TauI GCSGC 3 cut(s) 52, 55, 234
TfiI GAWTC 1 cut(s) 115
Tru1I TTAA 1 cut(s) 180
Tru9I TTAA 1 cut(s) 180
TscAI CASTG 2 cut(s) 377, 462
TseI GCWGC 2 cut(s) 55, 58
TspRI CASTG 2 cut(s) 377, 462
VpaK11BI GGWCC 1 cut(s) 424
XapI RAATTY 1 cut(s) 392
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.