Rorug04G0013300

SRP40, C-terminal domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0008781
Physical Location & Seq
Reverse (-)
2140497 .. 2141119
623 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0013300.1

Sequence Viewer

Length: 507 bp
ATGCAGTTGGTCCATGGCATTTCCCCTGATATTGTTCATTACGGTTGCATGGTCGATCTGCTAGGCCGAGCCGGGCTCTTGGAAGAAGCTGTTGATCTGATAAAGTGCATGCCAGTGGAACCTAATGATGTCATTTGGGTTTGTCTCTTGGCTGCGTGTCGAACCCACAAAAACATCGAAATGGCAGCATATGCAGCTGAACAGGTATCTAAATTGTCTACTCAGAGGAGTGTCAATGGAGTGATCCATGAGTTTACCTCTGATGGTGATACTGATACACAGACAGACAAGAGCCACATTGCGTTGATGTTGCAAGAAATAAACTGCAATCTCAGAGATGCTGGTCACGTTCCTGATTTGGACAATGTCCTGCTTGATGGTGATTTGAAGGAGCAAGAGTTCTTGCTCAGTCGACATAGTGAGGAAAGTGGCCATAGCTTTTGGGCTTATAGGTACAGGGCAAGGAATTCCAATTCCTTTGGTGAAGAATCTGAGAATCTGTTCTGA
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
SRP40_C

Protein Analysis

168

Amino Acids

18.83

Weight (kDa)

4.79

Isoelectric Point (pI)

50.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 6 - 37 1.5e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 218, 412
AclWI GGATC 1 cut(s) 238
AcoI YGGCCR 1 cut(s) 430
AcsI RAATTY 1 cut(s) 466
AfaI GTAC 1 cut(s) 455
AgsI TTSAA 1 cut(s) 388
AloI GAACNNNNNNTCC 2 cut(s) 383, 415
AluBI AGCT 3 cut(s) 89, 197, 438
AluI AGCT 3 cut(s) 89, 197, 438
Alw26I GTCTC 1 cut(s) 149
AlwI GGATC 1 cut(s) 238
AoxI GGCC 2 cut(s) 64, 430
ApeKI GCWGC 3 cut(s) 152, 185, 194
ApoI RAATTY 1 cut(s) 466
Asp700I GAANNNNTTC 1 cut(s) 500
AspS9I GGNCC 1 cut(s) 10
AsuC2I CCSGG 1 cut(s) 73
AsuHPI GGTGA 3 cut(s) 278, 392, 494
AvaII GGWCC 1 cut(s) 10
BalI TGGCCA 1 cut(s) 432
BanII GRGCYC 1 cut(s) 78
BbvI GCAGC 3 cut(s) 139, 197, 206
BccI CCATC 2 cut(s) 257, 371
BcnI CCSGG 1 cut(s) 73
BcoDI GTCTC 1 cut(s) 149
BfaI CTAG 1 cut(s) 62
BisI GCNGC 3 cut(s) 153, 186, 195
BlsI GCNGC 3 cut(s) 154, 187, 196
Bme1390I CCNGG 1 cut(s) 73
Bme18I GGWCC 1 cut(s) 10
BmgT120I GGNCC 1 cut(s) 10
BmiI GGNNCC 1 cut(s) 120
BmrFI CCNGG 1 cut(s) 73
BmsI GCATC 1 cut(s) 328
BplI GAGNNNNNCTC 4 cut(s) 60, 92, 242, 274
BpuMI CCSGG 1 cut(s) 73
BsaJI CCNNGG 1 cut(s) 13
BsaXI ACNNNNNCTCC 2 cut(s) 383, 413
Bse1I ACTGG 1 cut(s) 113
Bse3DI GCAATG 1 cut(s) 297
BseDI CCNNGG 1 cut(s) 13
BseMI GCAATG 1 cut(s) 297
BseMII CTCAG 4 cut(s) 236, 346, 421, 483
BseNI ACTGG 1 cut(s) 113
BseRI GAGGAG 1 cut(s) 241
BseXI GCAGC 3 cut(s) 139, 197, 206
BshFI GGCC 2 cut(s) 66, 432
BsiSI CCGG 1 cut(s) 72
BsmAI GTCTC 1 cut(s) 149
BsnI GGCC 2 cut(s) 66, 432
Bsp1286I GDGCHC 1 cut(s) 78
Bsp143I GATC 3 cut(s) 55, 94, 243
Bsp19I CCATGG 1 cut(s) 13
BspANI GGCC 2 cut(s) 66, 432
BspCNI CTCAG 4 cut(s) 235, 345, 420, 484
BspLI GGNNCC 1 cut(s) 120
BspPI GGATC 1 cut(s) 238
BsrDI GCAATG 1 cut(s) 297
BsrI ACTGG 1 cut(s) 113
BssECI CCNNGG 1 cut(s) 13
BssMI GATC 3 cut(s) 55, 94, 243
BssT1I CCWWGG 1 cut(s) 13
Bst4CI ACNGT 1 cut(s) 44
BstAPI GCANNNNNTGC 1 cut(s) 191
BstC8I GCNNGC 1 cut(s) 110
BstDEI CTNAG 4 cut(s) 222, 332, 407, 492
BstDSI CCRYGG 1 cut(s) 13
BstKTI GATC 3 cut(s) 58, 97, 246
BstMAI GTCTC 1 cut(s) 149
BstMBI GATC 3 cut(s) 55, 94, 243
BstMWI GCNNNNNNNGC 2 cut(s) 191, 194
BstNSI RCATGY 1 cut(s) 112
BstSCI CCNGG 1 cut(s) 71
BstV1I GCAGC 3 cut(s) 139, 197, 206
BsuRI GGCC 2 cut(s) 66, 432
BtgI CCRYGG 1 cut(s) 13
BtsIMutI CAGTG 1 cut(s) 120
Cac8I GCNNGC 1 cut(s) 110
Cfr13I GGNCC 1 cut(s) 10
Csp6I GTAC 1 cut(s) 454
CviAII CATG 4 cut(s) 14, 49, 109, 248
CviQI GTAC 1 cut(s) 454
DdeI CTNAG 4 cut(s) 222, 332, 407, 492
DpnI GATC 3 cut(s) 57, 96, 245
DpnII GATC 3 cut(s) 55, 94, 243
EaeI YGGCCR 1 cut(s) 430
Eco130I CCWWGG 1 cut(s) 13
Eco24I GRGCYC 1 cut(s) 78
Eco47I GGWCC 1 cut(s) 10
EcoRI GAATTC 1 cut(s) 466
EcoT14I CCWWGG 1 cut(s) 13
EcoT38I GRGCYC 1 cut(s) 78
ErhI CCWWGG 1 cut(s) 13
FaeI CATG 4 cut(s) 17, 52, 112, 251
FaiI YATR 9 cut(s) 15, 50, 110, 190, 192, 249, 417, 435, 450
FatI CATG 4 cut(s) 13, 48, 108, 247
FauNDI CATATG 1 cut(s) 190
FblI GTMKAC 2 cut(s) 218, 412
Fnu4HI GCNGC 3 cut(s) 153, 186, 195
FriOI GRGCYC 1 cut(s) 78
Fsp4HI GCNGC 3 cut(s) 153, 186, 195
FspBI CTAG 1 cut(s) 62
GluI GCNGC 3 cut(s) 153, 186, 195
HaeIII GGCC 2 cut(s) 66, 432
HapII CCGG 1 cut(s) 72
Hin1II CATG 4 cut(s) 17, 52, 112, 251
HincII GTYRAC 1 cut(s) 413
HindII GTYRAC 1 cut(s) 413
HinfI GANTC 2 cut(s) 488, 496
HpaII CCGG 1 cut(s) 72
HphI GGTGA 3 cut(s) 278, 392, 494
Hpy166II GTNNAC 3 cut(s) 219, 255, 413
Hpy188I TCNGA 6 cut(s) 99, 225, 262, 335, 493, 506
Hpy188III TCNNGA 1 cut(s) 353
Hpy8I GTNNAC 3 cut(s) 219, 255, 413
HpyAV CCTTC 1 cut(s) 382
HpyCH4III ACNGT 1 cut(s) 44
HpyCH4IV ACGT 1 cut(s) 348
HpyCH4V TGCA 6 cut(s) 4, 48, 108, 194, 313, 327
HpyF10VI GCNNNNNNNGC 2 cut(s) 191, 194
HpyF3I CTNAG 4 cut(s) 222, 332, 407, 492
HpySE526I ACGT 1 cut(s) 348
Hsp92II CATG 4 cut(s) 17, 52, 112, 251
Kzo9I GATC 3 cut(s) 55, 94, 243
LmnI GCTCC 1 cut(s) 391
LpnPI CCDG 8 cut(s) 39, 85, 126, 188, 327, 366, 383, 442
Lsp1109I GCAGC 3 cut(s) 139, 197, 206
LweI GCATC 1 cut(s) 328
MaeI CTAG 1 cut(s) 62
MaeII ACGT 1 cut(s) 348
MaeIII GTNAC 1 cut(s) 344
MalI GATC 3 cut(s) 57, 96, 245
MboI GATC 3 cut(s) 55, 94, 243
MboII GAAGA 2 cut(s) 95, 497
MhlI GDGCHC 1 cut(s) 78
MlsI TGGCCA 1 cut(s) 432
MluCI AATT 3 cut(s) 212, 466, 472
MluNI TGGCCA 1 cut(s) 432
MnlI CCTC 3 cut(s) 219, 268, 415
Mox20I TGGCCA 1 cut(s) 432
MroXI GAANNNNTTC 1 cut(s) 500
MscI TGGCCA 1 cut(s) 432
MslI CAYNNNNRTG 2 cut(s) 113, 179
Msp20I TGGCCA 1 cut(s) 432
MspA1I CMGCKG 1 cut(s) 197
MspI CCGG 1 cut(s) 72
MspR9I CCNGG 1 cut(s) 73
MwoI GCNNNNNNNGC 2 cut(s) 191, 194
NciI CCSGG 1 cut(s) 73
NcoI CCATGG 1 cut(s) 13
NdeI CATATG 1 cut(s) 190
NdeII GATC 3 cut(s) 55, 94, 243
NlaIII CATG 4 cut(s) 17, 52, 112, 251
NlaIV GGNNCC 1 cut(s) 120
NmeAIII GCCGAG 1 cut(s) 92
NmuCI GTSAC 1 cut(s) 344
NspI RCATGY 1 cut(s) 112
PaeI GCATGC 1 cut(s) 112
PdmI GAANNNNTTC 1 cut(s) 500
PfeI GAWTC 2 cut(s) 488, 496
PflFI GACNNNGTC 1 cut(s) 365
PkrI GCNGC 3 cut(s) 154, 187, 196
PspN4I GGNNCC 1 cut(s) 120
PspPI GGNCC 1 cut(s) 10
PsyI GACNNNGTC 1 cut(s) 365
PvuII CAGCTG 1 cut(s) 197
RsaI GTAC 1 cut(s) 455
RsaNI GTAC 1 cut(s) 454
RseI CAYNNNNRTG 2 cut(s) 113, 179
SalI GTCGAC 1 cut(s) 411
SatI GCNGC 3 cut(s) 153, 186, 195
Sau3AI GATC 3 cut(s) 55, 94, 243
Sau96I GGNCC 1 cut(s) 10
ScrFI CCNGG 1 cut(s) 73
SduI GDGCHC 1 cut(s) 78
SetI ASST 8 cut(s) 91, 124, 199, 207, 260, 351, 440, 455
SfaNI GCATC 1 cut(s) 328
SinI GGWCC 1 cut(s) 10
SmiMI CAYNNNNRTG 2 cut(s) 113, 179
SphI GCATGC 1 cut(s) 112
Sse9I AATT 3 cut(s) 212, 466, 472
SspMI CTAG 1 cut(s) 62
StyD4I CCNGG 1 cut(s) 71
StyI CCWWGG 1 cut(s) 13
TaaI ACNGT 1 cut(s) 44
TaiI ACGT 1 cut(s) 351
TaqI TCGA 4 cut(s) 54, 160, 177, 412
TasI AATT 3 cut(s) 212, 466, 472
TfiI GAWTC 2 cut(s) 488, 496
TscAI CASTG 1 cut(s) 120
TseFI GTSAC 1 cut(s) 344
TseI GCWGC 3 cut(s) 152, 185, 194
Tsp45I GTSAC 1 cut(s) 344
TspDTI ATGAA 1 cut(s) 26
TspRI CASTG 1 cut(s) 120
Tth111I GACNNNGTC 1 cut(s) 365
VpaK11BI GGWCC 1 cut(s) 10
XapI RAATTY 1 cut(s) 466
XceI RCATGY 1 cut(s) 112
XmiI GTMKAC 2 cut(s) 218, 412
XmnI GAANNNNTTC 1 cut(s) 500
XspI CTAG 1 cut(s) 62
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.