Rroxscaffold_6G00398410

tRNA-splicing endonuclease subunit sen54 N-term

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0002829
Physical Location & Seq
Forward (+)
20299959 .. 20302827
2869 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00398410.1

Sequence Viewer

Length: 783 bp
ATGGAGCCACTGGATTCTTTGGGAGAGCCTGATATCAATGATGTCGAAGAAGAAGAAGAAGAAGAACAAGTTCACTATGCTTCTGGGCCCGCATCCAAATTGCAACCCAGGGCGGTTGTGTCCAAGGCTCGCTGGAATGATGAGATGGGCATGGCTCAGGTCGTAGTTCAGAAGGGCACATTTTCCAAGTCTACTGGAATTGTTCGTAGTGGCAACCTCTATTACTCCATTGAGGAAGTTCTGTTTTTGGTTGAAATAGGGGCTTTAGTTCTATTGGATGAGAGTGATACTGGCCTTTCCTTGGAAGACGTATATGTGAAGATTTCAGGTGGCAAGTATGGATGCTGTTGGGAGGAATTTCGAGCTTATAGGCAACTCAAATCTCTTGGTTACATTGTTGGGCGTTATGGTATTCCCTGGTCTATGAAGAAGGCTAAGAGTAATTGTGAATCTATTTCCTCCCAAGGTTGTCCTGACAGTGATGAGGCGGTGAACTTGGAATCAGAAGAGATCAGGTCTGTCATTGGATTGTTCAATGAGATGCAGATTAATGAAGCCAGGCCGGTTTTTAATGTGTATCTCCCTAACAGCAAGTTCAGGAAGTCTTCTCCCGGTGATCCATGCTTTGTGCTCTGTTTTACTAGGGGATATCCGCCATCCAGAGCAGAGCTTGAAGCCCTCGAGGGACAATGTAGGAGCATTCCTTTGAAGTTTTGTAATGTGGAGCAGGGACGGGTGAGTTTCTTTTCCTTTGACAAGGTGGAACTTCCTATCCTAGATTGA
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
tRNA_int_end_N2

Protein Analysis

260

Amino Acids

29.09

Weight (kDa)

4.7

Isoelectric Point (pI)

47.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
tRNA_int_end_N2 PF12928 40 - 91 1.7e-11 tRNA-splicing endonuclease subunit sen54 N-term
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 680
AccI GTMKAC 1 cut(s) 191
AciI CCGC 4 cut(s) 90, 113, 488, 653
AclWI GGATC 1 cut(s) 611
AcsI RAATTY 1 cut(s) 356
AfiI CCNNNNNNNGG 1 cut(s) 301
AgsI TTSAA 4 cut(s) 254, 535, 674, 709
AjnI CCWGG 3 cut(s) 107, 416, 557
AloI GAACNNNNNNTCC 1 cut(s) 756
AluBI AGCT 2 cut(s) 365, 670
AluI AGCT 2 cut(s) 365, 670
Alw21I GWGCWC 1 cut(s) 633
AlwI GGATC 1 cut(s) 611
Ama87I CYCGRG 1 cut(s) 680
AoxI GGCC 3 cut(s) 86, 292, 560
ApaI GGGCCC 1 cut(s) 90
ApoI RAATTY 1 cut(s) 356
AseI ATTAAT 1 cut(s) 549
Asp700I GAANNNNTTC 1 cut(s) 69
AspS9I GGNCC 2 cut(s) 86, 87
AsuC2I CCSGG 1 cut(s) 612
AsuHPI GGTGA 3 cut(s) 502, 626, 748
AvaI CYCGRG 1 cut(s) 680
BaeGI GKGCMC 2 cut(s) 90, 179
BanII GRGCYC 1 cut(s) 90
BbsI GAAGAC 2 cut(s) 312, 597
Bbv12I GWGCWC 1 cut(s) 633
BccI CCATC 2 cut(s) 139, 664
BciT130I CCWGG 3 cut(s) 109, 418, 559
BcnI CCSGG 1 cut(s) 612
BfaI CTAG 2 cut(s) 642, 776
Bme1390I CCNGG 4 cut(s) 109, 418, 559, 612
BmeT110I CYCGRG 1 cut(s) 680
BmgT120I GGNCC 2 cut(s) 86, 87
BmiI GGNNCC 2 cut(s) 6, 88
BmrFI CCNGG 4 cut(s) 109, 418, 559, 612
BmsI GCATC 3 cut(s) 101, 332, 531
BpiI GAAGAC 2 cut(s) 312, 597
Bpu10I CCTNAGC 1 cut(s) 156
BpuMI CCSGG 1 cut(s) 612
BsaJI CCNNGG 6 cut(s) 107, 108, 123, 300, 416, 463
Bsc4I CCNNNNNNNGG 1 cut(s) 301
Bse118I RCCGGY 1 cut(s) 562
Bse1I ACTGG 3 cut(s) 15, 199, 295
BseBI CCWGG 3 cut(s) 109, 418, 559
BseDI CCNNGG 6 cut(s) 107, 108, 123, 300, 416, 463
BseGI GGATG 4 cut(s) 92, 283, 347, 656
BseLI CCNNNNNNNGG 1 cut(s) 301
BseMII CTCAG 1 cut(s) 170
BseNI ACTGG 3 cut(s) 15, 199, 295
BseSI GKGCMC 2 cut(s) 90, 179
BshFI GGCC 3 cut(s) 88, 294, 562
BsiHKAI GWGCWC 1 cut(s) 633
BsiHKCI CYCGRG 1 cut(s) 680
BsiSI CCGG 2 cut(s) 563, 612
BslFI GGGAC 2 cut(s) 699, 744
BslI CCNNNNNNNGG 1 cut(s) 301
BsmFI GGGAC 2 cut(s) 699, 744
BsmI GAATGC 1 cut(s) 699
BsnI GGCC 3 cut(s) 88, 294, 562
BsoBI CYCGRG 1 cut(s) 680
Bsp120I GGGCCC 1 cut(s) 86
Bsp1286I GDGCHC 3 cut(s) 90, 179, 633
Bsp143I GATC 2 cut(s) 510, 616
BspACI CCGC 4 cut(s) 90, 113, 488, 653
BspANI GGCC 3 cut(s) 88, 294, 562
BspCNI CTCAG 1 cut(s) 169
BspLI GGNNCC 2 cut(s) 6, 88
BspPI GGATC 1 cut(s) 611
BsrFI RCCGGY 1 cut(s) 562
BsrI ACTGG 3 cut(s) 15, 199, 295
BssAI RCCGGY 1 cut(s) 562
BssECI CCNNGG 6 cut(s) 107, 108, 123, 300, 416, 463
BssMI GATC 2 cut(s) 510, 616
BssT1I CCWWGG 3 cut(s) 123, 300, 463
Bst2UI CCWGG 3 cut(s) 109, 418, 559
Bst4CI ACNGT 1 cut(s) 479
Bst6I CTCTTC 1 cut(s) 501
BstC8I GCNNGC 2 cut(s) 90, 130
BstDEI CTNAG 2 cut(s) 156, 435
BstF5I GGATG 4 cut(s) 92, 283, 347, 656
BstKTI GATC 2 cut(s) 513, 619
BstMBI GATC 2 cut(s) 510, 616
BstNI CCWGG 3 cut(s) 109, 418, 559
BstSCI CCNGG 4 cut(s) 107, 416, 557, 610
BstSLI GKGCMC 2 cut(s) 90, 179
BstV2I GAAGAC 2 cut(s) 312, 597
BsuRI GGCC 3 cut(s) 88, 294, 562
BtsCI GGATG 4 cut(s) 92, 283, 347, 656
BtsIMutI CAGTG 2 cut(s) 8, 484
Cac8I GCNNGC 2 cut(s) 90, 130
Cfr10I RCCGGY 1 cut(s) 562
Cfr13I GGNCC 2 cut(s) 86, 87
CviAII CATG 2 cut(s) 151, 621
DdeI CTNAG 2 cut(s) 156, 435
DpnI GATC 2 cut(s) 512, 618
DpnII GATC 2 cut(s) 510, 616
Eam1104I CTCTTC 1 cut(s) 501
EarI CTCTTC 1 cut(s) 501
EciI GGCGGA 1 cut(s) 642
Eco130I CCWWGG 3 cut(s) 123, 300, 463
Eco24I GRGCYC 1 cut(s) 90
Eco32I GATATC 2 cut(s) 34, 650
Eco88I CYCGRG 1 cut(s) 680
EcoRII CCWGG 3 cut(s) 107, 416, 557
EcoRV GATATC 2 cut(s) 34, 650
EcoT14I CCWWGG 3 cut(s) 123, 300, 463
EcoT38I GRGCYC 1 cut(s) 90
ErhI CCWWGG 3 cut(s) 123, 300, 463
FaeI CATG 2 cut(s) 154, 624
FaiI YATR 9 cut(s) 78, 152, 313, 315, 339, 369, 408, 425, 622
FaqI GGGAC 2 cut(s) 699, 744
FatI CATG 2 cut(s) 150, 620
FauI CCCGC 1 cut(s) 97
FblI GTMKAC 1 cut(s) 191
FokI GGATG 4 cut(s) 79, 290, 354, 643
FriOI GRGCYC 1 cut(s) 90
FspBI CTAG 2 cut(s) 642, 776
HaeIII GGCC 3 cut(s) 88, 294, 562
HapII CCGG 2 cut(s) 563, 612
Hin1II CATG 2 cut(s) 154, 624
HinfI GANTC 3 cut(s) 14, 449, 500
HpaII CCGG 2 cut(s) 563, 612
HphI GGTGA 3 cut(s) 502, 626, 748
Hpy166II GTNNAC 3 cut(s) 73, 192, 493
Hpy188I TCNGA 2 cut(s) 171, 505
Hpy188III TCNNGA 3 cut(s) 473, 598, 660
Hpy8I GTNNAC 3 cut(s) 73, 192, 493
HpyAV CCTTC 2 cut(s) 166, 424
HpyCH4III ACNGT 1 cut(s) 479
HpyCH4IV ACGT 1 cut(s) 309
HpyCH4V TGCA 2 cut(s) 103, 544
HpyF3I CTNAG 2 cut(s) 156, 435
HpySE526I ACGT 1 cut(s) 309
Hsp92II CATG 2 cut(s) 154, 624
Kzo9I GATC 2 cut(s) 510, 616
LmnI GCTCC 3 cut(s) 4, 696, 724
LweI GCATC 3 cut(s) 101, 332, 531
MaeI CTAG 2 cut(s) 642, 776
MaeII ACGT 1 cut(s) 309
MaeIII GTNAC 1 cut(s) 389
MalI GATC 2 cut(s) 512, 618
MboI GATC 2 cut(s) 510, 616
MhlI GDGCHC 3 cut(s) 90, 179, 633
MluCI AATT 4 cut(s) 98, 198, 356, 442
MnlI CCTC 7 cut(s) 226, 227, 346, 469, 478, 676, 689
MroXI GAANNNNTTC 1 cut(s) 69
MseI TTAA 2 cut(s) 549, 570
MspI CCGG 2 cut(s) 563, 612
MspR9I CCNGG 4 cut(s) 109, 418, 559, 612
Mva1269I GAATGC 1 cut(s) 699
MvaI CCWGG 3 cut(s) 109, 418, 559
NciI CCSGG 1 cut(s) 612
NdeII GATC 2 cut(s) 510, 616
NlaIII CATG 2 cut(s) 154, 624
NlaIV GGNNCC 2 cut(s) 6, 88
PaeR7I CTCGAG 1 cut(s) 680
PasI CCCWGGG 1 cut(s) 108
PctI GAATGC 1 cut(s) 699
PdmI GAANNNNTTC 1 cut(s) 69
PfeI GAWTC 3 cut(s) 14, 449, 500
PshBI ATTAAT 1 cut(s) 549
Psp6I CCWGG 3 cut(s) 107, 416, 557
PspGI CCWGG 3 cut(s) 107, 416, 557
PspN4I GGNNCC 2 cut(s) 6, 88
PspOMI GGGCCC 1 cut(s) 86
PspPI GGNCC 2 cut(s) 86, 87
PspXI VCTCGAGB 1 cut(s) 680
SaqAI TTAA 2 cut(s) 549, 570
Sau3AI GATC 2 cut(s) 510, 616
Sau96I GGNCC 2 cut(s) 86, 87
ScrFI CCNGG 4 cut(s) 109, 418, 559, 612
SduI GDGCHC 3 cut(s) 90, 179, 633
SetI ASST 9 cut(s) 162, 219, 312, 331, 367, 469, 518, 672, 762
SfaNI GCATC 3 cut(s) 101, 332, 531
Sfr274I CTCGAG 1 cut(s) 680
SlaI CTCGAG 1 cut(s) 680
SmlI CTYRAG 1 cut(s) 680
SmoI CTYRAG 1 cut(s) 680
Sse9I AATT 4 cut(s) 98, 198, 356, 442
SsiI CCGC 4 cut(s) 90, 113, 488, 653
SspMI CTAG 2 cut(s) 642, 776
StyD4I CCNGG 4 cut(s) 107, 416, 557, 610
StyI CCWWGG 3 cut(s) 123, 300, 463
TaaI ACNGT 1 cut(s) 479
TaiI ACGT 1 cut(s) 312
TaqI TCGA 3 cut(s) 45, 361, 681
TasI AATT 4 cut(s) 98, 198, 356, 442
TfiI GAWTC 3 cut(s) 14, 449, 500
Tru1I TTAA 2 cut(s) 549, 570
Tru9I TTAA 2 cut(s) 549, 570
TscAI CASTG 2 cut(s) 15, 484
TspDTI ATGAA 2 cut(s) 440, 567
TspRI CASTG 2 cut(s) 15, 484
VspI ATTAAT 1 cut(s) 549
XapI RAATTY 1 cut(s) 356
XhoI CTCGAG 1 cut(s) 680
XmiI GTMKAC 1 cut(s) 191
XmnI GAANNNNTTC 1 cut(s) 69
XspI CTAG 2 cut(s) 642, 776
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.