LOC110517212 (rtcb)


Basic Information

Item Value
gene id LOC110517212
gene name rtcb
gene type coding
species rainbow trout (Oncorhynchus mykiss)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_048579.1
NCBI id CM023233.2
chromosome length 81569517
location 80268944 ~ 80284094 (+)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_036945503.1
CTCTGAGTTGCCGTAGTTGTAGTTTGTTGGTTCAGAACAGAATCAGACACTGctgaaatataagtgaaataaacagcGAGCTACATAATCATATCATGAGTCGATCGTACAATGACGAGTTACAATATTTGGACAAGATTGACAAGAACTGCTGGCGAATCAAGAAAGGTTTCGTCCCAAATATGCAGGTGGAAGGGGTGTTTTACGTCAACGAGTCCCTGGAGAAGCTGATGTTTGAGGAGCTGCGTAACGCGTGTAAAGGAGGAGGTTTTGGCGGGTTTCTCCCTGCCATGAAACAGATTGGAAACGTTGCAGCTCTGCCGGGTATAGTCCATagGTCCATCGGCCTGCCAGACTGCCACTCAGGGTATGGGTTCGCCATTGGAAACATGGCTGCCTTCGACATGAGCGACCCCAACGCAGTCGTATCCCCAGgTGGTGTGGGGTTTGATATTAACTGTGGAGTGCGTCTACTAAGGACCAACCTAGACGAGGGAGACGTCCAGCCTGTCAAGGAGCAGCTGGCTCAGGCCCTGTTTGACCACATCCCTGTAGGAGTCGGCTCCAAGGGAGTCATCCCTATGACCGCCAAGGATCTAGAGGAGGCTCTAGAGATGGGAGTGGACTGGTCCCTGAGAGAAGGCTATGCCTGGGCAGAGGATAAGGAGCACTGTGAGGAGTATGGCAGGATGCTGCAGGCCGACCCCAACAAGGTCTCCTCCAAGGCCAAGAAGAGAGGCCTGCCTCAGCTAGGTACTCTGGGGGCAGGGAACCACTACGCTGAGATCCAGGTGGTGGATGAGATCTATAATGACTATGCTGCTAAGAAGATGGGCATCGACCACAAGGGCCAGGTGTGTGTGATGATCCACAGTGGCAGCAGGGGGCTGGGCCACCAGGTGGCGACAGATGCCCTGGTTGCCATGGAGAAGGCGATGAAGCGAGACAAGATCCAGGTGAACGATCGTCAGCTGGCGTGCGCCCGTATCTTTTCAGAGGAGGGACAAGACTACCTGAAAGGAATGGCCGCCGCCGGCAACTATGCCTGGGTCAACCGTTCCTCTATGACCTTCCTCACACGACAGgcGTTTGCCAAGGTGTTCACCACCACTCCTGATGACCTGGACATGCATGTGATCTATGACGTGTCTCATAACATCGCCAAGGTGGAGGAACACATGGTAGATGGGAAACAGAAGACTCTACTGCTGCATCGCAAGGGATCCACCCGGGCCTTCCCTCCACACCaccccctcatccctgtagactaccagCTGACAGGCCAGCCGGTGTTGATCGGGGGCACGATGGGCACCTGCAGTTACGTCCTGACGGGCACGGAACAGGGCATGACGGAGACCTTCGGCACCACCTGTCACGGCGCGGGTCGGGCTCTGTCTCGGGCCAAATCCCGCAGGAACATCGACTTCCAGGACGTGTTGGATAAGCTGGCAGACAAGGGTATCGCCATCAGGGTGGCTTCGCCCAAACTAGTTATGGAGGAGGCTCCGGAGTCGTACAAAAACGTGTGTGATGTCGTCAACACGTGTCACGATGCTGGAATCAGCAAGAAAGCCATCAAACTACGACCCATCGCTGTGATCAAGGGATAAGGCTGCACCGCTCTGCTAGTGACGGCATTGGCCATGGCACTCCCTCCAGGAGCCAATCACCAGGCAGAGAGCTGGCGGAGGAGCCAATGGGGAAGTGTCTGACTGCGAGTGAGCATGTCCGTCTTCATAGACTGACTTGACAAGGGATCGGTTTCCTCCACTTCCTGTTTATGACCAGTATGATTATTTTGGCATGGGGGGGTGATTTGTCCGTTTAGTGATCAATTTAATTGGACCGGATGGGCTCTTTAATATTGTAAAGTTTGAGAGGGTGAAGTGTCTTGGGTTTACTTTTCATTCATGGCAAAGTCACTGTGGAAAATAACCTTGAGATTCAGGTTAACCAGAGATAATAAAATACAAGATGACAGATTGATCTACTTGCA

Function

symbol description
rtcb Predicted to enable RNA ligase (ATP) activity. Predicted to be involved in tRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate. Predicted to act upstream of or within tRNA processing. Predicted to be located in cytoplasm. Predicted to be part of tRNA-splicing ligase complex. Predicted to be active in nucleus. Orthologous to human RTCB (RNA 2',3'-cyclic phosphate and 5'-OH ligase).

NR:

description
tRNA-splicing ligase RtcB homolog

GO:

id name namespace
GO:0006388 tRNA splicing, via endonucleolytic cleavage and ligation biological_process
GO:0072669 tRNA-splicing ligase complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0005524 ATP binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003972 RNA ligase (ATP) activity molecular_function

KEGG:

id description
K14415 RTCB, rtcB; tRNA-splicing ligase RtcB (3'-phosphate/5'-hydroxy nucleic acid ligase)

RNA

RNA id representative length rna type GC content exon number start site end site
XM_036945503.1 True 1999 mRNA 0.53 12 80268944 80284094
Loading

Neighbor

gene id symbol gene type direction distance location
LOC110517730 LOC105026518 coding upstream 55654 80203140 ~ 80213290 (+)
LOC118936540 LOC106591976 coding upstream 135245 80109080 ~ 80133699 (+)
LOC110511598 LOC106595231 coding upstream 388574 79839398 ~ 79880370 (+)
LOC118938878 NA coding upstream 547972 79718876 ~ 79720972 (+)
LOC118938875 NA coding upstream 655201 79608818 ~ 79640460 (+)
LOC110516869 LOC106593275 coding downstream 64152 80348246 ~ 80354306 (+)
LOC118938966 NA coding downstream 65021 80349115 ~ 80349249 (+)
LOC118938906 NA coding downstream 446318 80730412 ~ 80731335 (+)
LOC118938882 cunh11orf98 coding downstream 552635 80836729 ~ 80841276 (+)
LOC118936541 lrp6 coding downstream 589051 80873145 ~ 80954097 (+)
G1329703 NA non-coding upstream 5893 80258984 ~ 80263051 (+)
G1329702 NA non-coding upstream 11284 80257131 ~ 80257660 (+)
G1329700 NA non-coding upstream 11991 80256733 ~ 80256953 (+)
G1329699 NA non-coding upstream 17473 80251243 ~ 80251471 (+)
G1329698 NA non-coding upstream 17949 80250763 ~ 80250995 (+)
G1329706 NA non-coding downstream 2378 80286472 ~ 80286750 (+)
G1329707 NA non-coding downstream 7608 80291702 ~ 80291925 (+)
G1329708 LOC106594631 non-coding downstream 22867 80306961 ~ 80307665 (+)
G1329710 LOC106594631 non-coding downstream 33275 80317369 ~ 80317993 (+)
G1329717 NA non-coding downstream 41385 80325479 ~ 80325957 (+)
G1329273 NA other upstream 282993 79985593 ~ 79985951 (+)
G1329160 NA other upstream 601289 79664957 ~ 79667655 (+)
G1329159 NA other upstream 604212 79663914 ~ 79664732 (+)
G1329153 LOC106593057 other upstream 646993 79618397 ~ 79621951 (+)
G1328968 NA other upstream 1229487 79038604 ~ 79039457 (+)
G1329827 NA other downstream 134370 80418464 ~ 80419259 (+)
G1329865 NA other downstream 205754 80489848 ~ 80490772 (+)
G1330026 NA other downstream 565249 80849343 ~ 80869367 (+)
tbk1 tbk1 other downstream 698090 80970502 ~ 81033922 (+)
G1330089 NA other downstream 728435 81012529 ~ 81013102 (+)

Expression

LOC110517212(rtcb) Expression in all Baseline Samples

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LOC110517212(rtcb) Expression in each Bioproject

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LOC110517212(rtcb) Expression in each Sample
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The chart has 1 Y axis displaying Expression. Range: 0 to 600.
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Co-expression Network