Difference between revisions of "ENST00000357401.3"
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| − | is a long transcript overlapping with CYYR1 as antisense RNA. | + | ''CYYR1-AS1'' is a long transcript overlapping with CYYR1 as antisense RNA. |
==Annotated Information== | ==Annotated Information== | ||
| − | === | + | ===Name=== |
''CYYR1-AS1'':cysteine/tyrosine-rich 1 antisense RNA 1(HGNC nomenclature) | ''CYYR1-AS1'':cysteine/tyrosine-rich 1 antisense RNA 1(HGNC nomenclature) | ||
===Characteristics=== | ===Characteristics=== | ||
| − | CYYR1-AS1 is on the opposite strand compared to CYYR1 and its four exons sequences are in correspondence of CYYR1 intron sequences<ref name="ref1" />. | + | CYYR1-AS1 is on the opposite strand compared to CYYR1 and its four exons sequences are in correspondence of CYYR1 intron sequences. It was classified in GenBank as moderately similar to a transposase and was obtained by the NEDO human cDNA sequencing project from the NT2 neuronal precursor cell line. <ref name="ref1" />. |
===Function=== | ===Function=== | ||
| − | The ''CYYR1-AS1'' expression in normal human tissues studied seems to suggested that a fine regulation of the locus may occur in different kind | + | The ''CYYR1-AS1'' expression in normal human tissues studied seems to suggested that a fine regulation of the locus may occur in different kind of tissues.<ref name="ref1" /> |
| + | |||
| + | CYYR1-AS shows correlation with CYYR1-1,2,3,4<ref name="ref1" />. | ||
===Regulation=== | ===Regulation=== | ||
| − | + | CYYR1-AS1 could regulate the CYYR1 locus as a putative non-coding RNA (ncRNA), classifiable as a long non-coding RNA (lncRNA, greater than 200 nucleotides in length)<ref name="ref1" />. | |
===Expression=== | ===Expression=== | ||
[[File:qRT-PCR analysis of CYYR1 and CYYR1-AS1 in different human normal tissues.gif|right|thumb|400px|'''qRT-PCR analysis of CYYR1 and CYYR1-AS1 in different human normal tissues.'''<ref name="ref1" />]] | [[File:qRT-PCR analysis of CYYR1 and CYYR1-AS1 in different human normal tissues.gif|right|thumb|400px|'''qRT-PCR analysis of CYYR1 and CYYR1-AS1 in different human normal tissues.'''<ref name="ref1" />]] | ||
| − | CYYR1-AS1 is absent or significantly less expressed according to ANOVA analysis, heart | + | CYYR1-AS1 is absent or significantly less expressed according to ANOVA analysis, heart, colon, placenta,except for brain<ref name="ref1" />. |
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==Labs working on this lncRNA== | ==Labs working on this lncRNA== | ||
| Line 39: | Line 32: | ||
tID = ENST00000357401.3| | tID = ENST00000357401.3| | ||
source = Gencode19| | source = Gencode19| | ||
| − | same = lnc-GABPA-4:2,NONHSAT081541| | + | same = lnc-GABPA-4:2,NONHSAT081541,''CYYR1-AS1''| |
classification = antisense| | classification = antisense| | ||
length = 3412 nt| | length = 3412 nt| | ||
Latest revision as of 08:17, 28 March 2018
CYYR1-AS1 is a long transcript overlapping with CYYR1 as antisense RNA.
Contents
Annotated Information
Name
CYYR1-AS1:cysteine/tyrosine-rich 1 antisense RNA 1(HGNC nomenclature)
Characteristics
CYYR1-AS1 is on the opposite strand compared to CYYR1 and its four exons sequences are in correspondence of CYYR1 intron sequences. It was classified in GenBank as moderately similar to a transposase and was obtained by the NEDO human cDNA sequencing project from the NT2 neuronal precursor cell line. [1].
Function
The CYYR1-AS1 expression in normal human tissues studied seems to suggested that a fine regulation of the locus may occur in different kind of tissues.[1]
CYYR1-AS shows correlation with CYYR1-1,2,3,4[1].
Regulation
CYYR1-AS1 could regulate the CYYR1 locus as a putative non-coding RNA (ncRNA), classifiable as a long non-coding RNA (lncRNA, greater than 200 nucleotides in length)[1].
Expression
qRT-PCR analysis of CYYR1 and CYYR1-AS1 in different human normal tissues.[1]
CYYR1-AS1 is absent or significantly less expressed according to ANOVA analysis, heart, colon, placenta,except for brain[1].
Labs working on this lncRNA
Department for Life Quality Studies, University of Bologna, C.so d’Augusto 237, 47921 Rimini, RN, Italy[1]
References
Basic Information
| Transcript ID |
ENST00000357401.3 |
| Source |
Gencode19 |
| Same with |
lnc-GABPA-4:2,NONHSAT081541,CYYR1-AS1 |
| Classification |
antisense |
| Length |
3412 nt |
| Genomic location |
chr21+:27778262..27941571 |
| Exon number |
4 |
| Exons |
27778262..27778447,27875901..27876021,27922638..27924446,27940276..27941571 |
| Genome context |
|
| Sequence |
000001 AGGTGTCGAA CCCAAGGGCT CTTCTCAGCA GAGTGTCTGC ATGCCACACT CTGCTTTAGA GTCTGTTCCC TGGGGAACAC 000080
000081 AACCAGAGAC TGAAATAATT GGTGGGCAGT GGGGAGCACA AAGGGCTGTT TTTGTTTCAT GTGAAGACGA TGAGCATGCT 000160 000161 ATGAACCCCG AAGAGCTGTT GTATAAAGTA TCTGCCTGGA AACCCTGTTG CCTGGAGACC ACTCTTGAAG AACATCCACT 000240 000241 GCTGTGGCCT CTTAAAGATT TAAGACATCT AATGAACAGC TGACAGAAAT CATCAATTTG CTCCTCAGCC TCCCTCCTCC 000320 000321 CTGAAACACA AAAACATTGA AATTAGGCCA ATTAATAACT CTACAATGGC CTCTAAGAGT TAAAATGAAA GGAAGTGTAA 000400 000401 AATGGTTTCT CACTTGAAAT CAAAAGCTAG AAATGATTAA GCTTCGTGAG GAAGGCAAGT TGAAAGCTGA GACAGCCAAA 000480 000481 AGCTGACTCC CGCACCAGGG AGCCAAGTTG TGCAAGCAAA GGAAAAGTTC TTGAAGGAAA TTAAAAGTGC TGCTCCAGTG 000560 000561 AACACATGAA TGATAAGAAA GCAAAAGTGA TCTGGGTAGA AGATCAAACC AGCCACAACA TGCCCTTAAG CCAAAGCCTA 000640 000641 ATCCAGAGCA AGGCTTTAAC TCTCTTCAAG TTTGTGAAGA CTGAGAGAGG TAAGGAAAGT GCAGAAGGAA AGTTAAATGC 000720 000721 TAGAAGAGTC GGTTCAGGAG GTTTCAGGAA AAAGCCATCT CCACAAATAA ACATACAACG CGAAGCAACA AATGCTGATG 000800 000801 TAGAAGCTGT GGCAAGTTTT CCAGAAGAGC TAGCTCAGAT CATTGATAAA CGTGGCTACA TTAAACAACA TATTTTCAGT 000880 000881 GTGGATGAAA CAGAGTCCTA TTGGAAGAAG ACACCATCTA GGACTTTCAT AGCTACAGGG AAAAGTCAAT GACTGGCTTC 000960 000961 AAAGCTTCAA AGAACAGGGT GACTCTCTTG TCAGACACTA ATACAGCTGC TGACTTGAAG TTGAAGCCAG TGCTCACTGC 001040 001041 ACATTCTGAA AACTTAAGGA TCCTTAAGAA CTGTGCTAAA TCTACTGTGC CTATGTGCAA CAAAGCCCTT ATGGCAGCAT 001120 001121 GTCTGTTTAC AGTATCATTT ACTGAATATT TGAAGCCTAC TACTGAGAAC TACTGCTCAG GAAAAAAGAT ACTTTTCAAA 001200 001201 ATAGTACTGC TCTTTGACAA TGGACCTGGT CACCCAAGAG CTCTGATGGA GGTGTGCAAG GAGATGAACG CTGTGTTCAT 001280 001281 GCCTGCTAAC ACAACACCCG TTCTGTACTC CATGGATCAC AGAGTAATTT TGACTTTCAA GTCTTATTAT TTGAGAAATA 001360 001361 AATTTTGTAA GGCTATAGCT GCCACACATA GTTATTCCTG TGATGGATCC GGGCAAAGTA AATTGAAAAC CTAGAAAAGA 001440 001441 GTCACCATTC TAGATGTCAC TAAGAACATT TGTGATTCAT GGGAGGAGGT TAAATTATCA ACATTAATAG AAGTTTGAAA 001520 001521 GAAATTTATT CCAGCCCTCA TGGATGACTT TGATGGGTTC AAGACTTTGG TAGAGGAAGT AACTGCAGGT ATAGTGATAA 001600 001601 TATCAAGGAA ATTAGAACTA AAAGTGGAGC CTGAAGATGT GACTGAATTG CTTCAGTCTC ACGATAAAAC TTGAACATAA 001680 001681 CAGCAGTTAA TTCTTACGGA TTAGCAAAAA AGTGGTTTTG TGAGATGGAA TCTATTCCTG GTGAAAATGC TGTGAACACT 001760 001761 GTGGAAATGA CAACAAAGGA TTTAGAATAT TACATAAACT TAGTTGATAA AGCAGCAGTA GGGTTTAGAA GGATTGACTC 001840 001841 CAATTTTGAA AGAAGTTCTA CGGTGGGTCA AACGCTACCG AAGAGCGTTG CACGCTATAG AGAAATCTTT CATGAAAGGA 001920 001921 GGAGTCAACT GATGTAGCAG ACTTCACTGT TGTCTTATTT TTAAAAATTT CCACAGCCAC CCCAATTTTC AGCAACCACC 002000 002001 ACCTTGATCA GTCAGCAGCC ATCAGCATCA AAGCAAGACC CTCTTCCAGC AAAAAAATTA CAACAACTTG CTGAAGGCTC 002080 002081 GGATGATTTT TAGCAACAAA CTATTTTAAA ATTAAGATTG TCAAACATGA CCCTTGAGGC TTACCTCTGG ATTGTGGTAT 002160 002161 GAAGGAATGA AAGCGAAAAA TAATTACCTT TGTGAGATTC AGTAAGTACT TAAGTCCACT TTTAAAATTT GAAAACAGAA 002240 002241 ACAAAATCTA ACGATTTAGA CACAAGGGAG AAGCCAATAT ATTGACAATA GATGCTTTTT GCAGAGTACA ACAGACTTTT 002320 002321 AAAGGCTATT TATTTTACAG TTTTCTTGGT GAATTTCCAT AGCTCTCATT TTTAGTGCTG TTTAATTTAT TCAAATATTT 002400 002401 AGACTGGTCA GTTATCCCAA GGGCTTAGTG GGGATGTTTT GCTTCATGTT CTTAAAAGCC ATTCAATGTA CGCCTACAGC 002480 002481 CATCTGATCT TTGACAAAGT CAGCAAAAAT AAGCAATGGG GAAAGGACTC CCTACTCAAT AAATGGTGTT GGATAACCAG 002560 002561 TTGGCCATAC ACAGAAGAAT GAAACTGGAC TCCTATCTTT TACCACATAC AAAAATTAAC TGAAAATGGA TTAAAGATTT 002640 002641 AAATGAAAGA CCTCAAACTA TAAGACTCCT AGAAGAAAAG CTAGGAAGCA CCGTTCCTGA CATCAGCCTT GGGAAGGAAT 002720 002721 TTATAACTAA GTCCTCAATA GCAATTGCAA CAAAAGCAAT TGACAAGCGG GATTTAATTA AACTAAAGAG CTTCTGCACA 002800 002801 GCAAAATAAA CTATCAACAG AGTAAACAAT CTACAGAATG GGAGAAAATA TGTGTAAGCT ATGCATCTGA CAAAAGCCTA 002880 002881 ATATCCAGAA TCTATAAGGA GGTTAAATAA TTGAACAAAC AAAAACCAAA TAATCTCATT AAAAAATGGG CAAAGGACAT 002960 002961 CAACCAGACA CTTCTCAAAA GAAGACATAC AAGCAGCCAA CAAACACAAC AAAAAAATGT TCAACAAGTC ACCAATCATC 003040 003041 AGAGAAATGC AAATCAAAAC AGAGGGCTAT TATTGAAAAG TCAAAAAAGC AACAGATGCT GGTGAGCCTG TGGAGAAAAG 003120 003121 GGAATACTTA TACACTGCTA TTGGAAATGT AAATTAGTTC AACCACTGTG GAAAGCAGTT GGGAGATTTC TCAAAGAACT 003200 003201 TAAATCAAAA CTACCATTTG CCTCAGTGAT CCCATTGCTG GGGTATCTAT CTAAAGGGAA ATAAATCATT CTATCAAAAA 003280 003281 GACAAATGCA GTTGTACATT CGTCACAGCA CTATTCAAAA TAGTAAAGAG ACTGATTCAT CCCAAGTGTT CATTAATAGT 003360 003361 GGACTCAGTA AAGAAAATGT GGTACATACA CACCGTGGAA TACTATGCAG CC |
Predicted Small Protein
| Name | ENST00000357401.3_smProtein_1724:1936 |
| Length | 71 |
| Molecular weight | 8097.0554 |
| Aromaticity | 0.0857142857143 |
| Instability index | 42.51 |
| Isoelectric point | 6.56390380859 |
| Runs | 10 |
| Runs residual | 0.0019801980198 |
| Runs probability | 0.0251633986928 |
| Amino acid sequence | MESIPGENAVNTVEMTTKDLEYYINLVDKAAVGFRRIDSNFERSSTVGQTLPKSVARYRE IFHERRSQLM |
| Secondary structure | LLLLLLLLLLLEEEELHHHHHHHHHHHHHHEELEEEELLLLLLLLLLLLLLLHHHHHHHH HHHHHHHLLL |
| PRMN | - |
| PiMo | - |
