GtRNAdb: Genomic tRNA Database

Gene: tRNA-Met-CAT-4-1

Overview

Organism	Homo sapiens
Locus	chr6:26735370-26735442 (-) View in Genome Browser
GtRNAdb Gene Symbol	tRNA-Met-CAT-4-1
HGNC Symbol	TRM-CAT4-1
RNAcentral ID	URS0000703910_9606
tRNAscan-SE ID	chr6.trna177
GtRNAdb 2009 Legacy Name and Score	chr6.trna164-MetCAT (75.76 bits)
Predicted tRNA Isotype / Anticodon	Met CAT
Top Scoring / Second Best Scoring Isotype Model	Met (108.2 bits) / Thr (83.4 bits)
Predicted Anticodon and Top Isotype Model	Consistent
Rank of tRNA Isodecoder	4 out of 7
Upstream / Downstream Sequence	GCGCGTTGATGCACTTCGTC / GCTTTTGCAAGTGAACGCTT
Intron	None
Possible Pseudogene	No
Gene Score	80.2
Mature tRNA Score	80.2
HMM Score	56.30
Secondary Structure Score	23.90
Atypical Features	U31:U39

Secondary Structure

Sequence

Genomic Sequence

GCCCTCTTAGCGCAGCGGGcAGCGCGTCAGTCTCATAATCTGAAGGtCCTGAGTTCGAGCCTCAGAGAGGGCA

Secondary Structure (nested bp)

>>>>>>>..>>>>........<<<<.>>>>.........<<<<.....>>>>>.......<<<<<<<<<<<<.

Predicted Mature tRNA

GCCCUCUUAGCGCAGCGGGCAGCGCGUCAGUCUCAUAAUCUGAAGGUCCUGAGUUCGAGCCUCAGAGAGGGCA

Alignments

Met tRNAs



>>>>>>>..>>>>..........<<<<.>>>>.........<<<<................>>>>>.......<<<<<<<<<<<<....
GCCCTCTTAGCGCAGT.GGGcA.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCGAGCCTCAGAGAGGGCA... tRNA-Met-CAT-2-1 Sc: 82.7  
GCCTCGTTAGCGCAGTAGGT.A.GCGCGTCAGTCTCATAATCTGAAG...........GtCGTGAGTTCGATCCTCACACGGGGCA... tRNA-Met-CAT-1-1 Sc: 82.3  
GCCCTCTTAGCGCAGC.GGGcA.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCGAGCCTCAGAGAGGGCA... tRNA-Met-CAT-4-1 Sc: 80.2  
GCCCTCTTAGCGCAGC.GGGcA.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCGAGCCTCAGAGAGGGCA... tRNA-Met-CAT-4-2 Sc: 80.2  
GCCCTCTTAGCGCAGC.GGGcA.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCGAGCCTCAGAGAGGGCA... tRNA-Met-CAT-4-3 Sc: 80.2  
GCCCTCTTAGCGCAGCTGGC.A.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCAAGCCTCAGAGAGGGCA... tRNA-Met-CAT-5-1 Sc: 79.2  
GCCCTCTTAGCGCAGCTGGC.A.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCAAGCCTCAGAGAGGGCA... tRNA-Met-CAT-5-2 Sc: 79.2  
GCCTCCTTAGCGCAGTAGGC.A.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCGAACCTCAGAGGGGGCA... tRNA-Met-CAT-3-1 Sc: 77.4  
GCCTCCTTAGCGCAGTAGGC.A.GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAGTTCGAACCTCAGAGGGGGCA... tRNA-Met-CAT-3-2 Sc: 77.4  
GCCTCGTTAGCGCAGTAGGC.A.GCGCGTCAGTCTCATAATCTGAAG...........GtCGTGAGTTCGAGCCTCACACGGGGCA... tRNA-Met-CAT-6-1 Sc: 77.4  
GCCCTCTTAGTGCAGCTGGC.A.GCGCGTCAGTTTCATAATCTGAAA...........GtCCTGAGTTCAAGCCTCAGAGAGGGCA... tRNA-Met-CAT-7-1 Sc: 66.2  
>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....
AGCAGAGTGGCGCAGC.GGA.A.GCGTGCTGGGCCCATAACCCAGAG...........GtCGATGGATCGAAACCATCCTCTGCTA... DM9990_CAT_HUMAN_CY   
AGCAGAGTGGCGCAGC.GGA.A.GCGTGCTGGGCCCATAACCCAGAG...........GtCGATGGATCGAAACCATCCTCTGCTA... DX9990_CAT_HUMAN_CY   
AGCAGAGTGGCGCAGC.GGA.A.GCGTGCTGGGCCCATAACCCAGAG...........GtCGATGGATCTAAACCATCCTCTGCTA... DX9991_CAT_HUMAN_CY   
>>>>>>>..>>>>..........<<<<.>>>>.........<<<<................>>>>>.......<<<<<<<<<<<<....
GCCTCGTTAGCGCAGTAGGT.A.GCGCGTCAGTCTCATAATCTGAAG...........GtCGTGAGTTCGATCCTCACACGGGGCAcca RM9990_CAT_HUMAN_HELA-CELLS   
>>>>>>>..>>>>..........<<<<.>>>>>.......<<<<<................>>>>>.......<<<<<<<<<<<<....
AGCAGAGTGGCGCAGC.GGA.A.GCGTGCTGGGCCCATAACCCAGAG...........GtCGATGGATCGAAACCATCCTCTGCTAcca RX9990_CAT_HUMAN_PLACENTA   


>>>>>.>..>>>>...........<<<<.>>>>.........<<<<................>>.>.>............<<.<<......<.<<<<<.
GTCTTCTTAGCGCAGT.GAGcA..GCGCGTCAGTCTCATAATCTGAAG...........GtCCTGAtGTTCGAGC.....CTGAG......AAAAGGCA tRX-Met-NNN-2-1 Sc: 41.7 (filtered) best isotype model: Met Sc: 67.9
>>>>>>>..>..>...........<..<.>>>>.........<<<<................>.>>.>............<<<.<......<<<<<<<.
GCCTTCTTAGCCCTGGAGGC.A..GCACATCAGTCTCATAATCTGAAG...........GtCCCGA.GCTTGAAC.....CTCAG......AGAGGGCA tRX-Met-NNN-1-1 Sc: 24.1 (filtered) best isotype model: Met Sc: 47.7
>>>>>>>..>>>>...........<<<<.>>.>.........<.<<................>>>>.>............<<<<<......<<<<<<<.
GCAGCTGTGGCTCAGT.GGAaA..GAGCATCAGTCTGGGTATCAGAAG...........A.CCTAG.GT...........CCTAGccc...CAGCTGTA tRX-Pro-NNN-1-1 Sc: 24.8 (filtered) best isotype model: Met Sc: 25.7
>>>.>>>...>>>...........<<<...>>>>.......<<<<.................>>>>.>............<<<<<......<<<.<<<.
GTGGATA..GCCCAGC.GGCtAt.GGGAGCCGGGCTCTCACTCTGAC............GtCCTGG.GTTCAAGT.....CCCAG......TGTGCACA tRNA-Glu-CTC-16-1 Sc: 27.3 (filtered) best isotype model: Met Sc: 6.8

Isotype-Specific Model Scores

Ala	Arg	Asn	Asp	Cys	Gln	Glu	Gly	His	Ile	Leu	Lys	Met	Phe	Pro	SeC	Ser	Thr	Trp	Tyr	Val	iMet
42.7	69.3	64.5	41.2	52.6	47.3	30.8	38.4	50.7	78.3	19.7	79.4	108.2	65.7	29.7	No Hit	14.7	83.4	52.4	33.5	75.0	-9.1

mt-Ala	mt-Arg	mt-Asn	mt-Asp	mt-Cys	mt-Gln	mt-Glu	mt-Gly	mt-His	mt-Ile	mt-LeuTAA	mt-LeuTAG	mt-Lys	mt-Met	mt-Phe	mt-Pro	mt-SerGCT	mt-SerTGA	mt-Thr	mt-Trp	mt-Tyr	mt-Val
No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit	No Hit

Top score

2nd highest score

3rd highest score