Difference between revisions of "ENST00000429328.2"
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==Annotated Information== | ==Annotated Information== | ||
+ | ===Name=== | ||
+ | PDZK1IP1-AS1 | ||
+ | |||
+ | ===Characteristics=== | ||
+ | Spliced, two exon 661nt transcript. | ||
+ | |||
+ | Transcribed bidirectionally with CYP4A22-AS1. | ||
+ | |||
+ | LincRNA catalogue from deep RNA sequencing suggests variation in transcript length and also potential alternative splicing ([http://www.ncbi.nlm.nih.gov/pubmed/21890647 (Cabili 2011)]). | ||
+ | |||
+ | Expressed downstream of TAL1 and PDZK1IP1 on the opposite strand. | ||
+ | |||
+ | In-vitro translation showed no sign of protein product. | ||
+ | |||
+ | ===Function=== | ||
+ | PDZK1IP1-AS1 expression appears to stimulate CMPK1 gene expression (in Jurkat cells). A gene located over 150 kb 3’ of PDZK1IP1-AS1 on the same strand. | ||
+ | |||
+ | ===Expression=== | ||
+ | Expressed in Jurkat cells, but not in MCF7 cells (unlike CYP4A22-AS1). | ||
+ | |||
+ | ===Conservation=== | ||
+ | Please input conservation information here. | ||
+ | |||
+ | ===Misc=== | ||
+ | Please input misc information here. | ||
+ | |||
===Transcriptomic Nomeclature=== | ===Transcriptomic Nomeclature=== | ||
Please input transcriptomic nomeclature information here. | Please input transcriptomic nomeclature information here. | ||
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===Regulation=== | ===Regulation=== | ||
Please input regulation information here. | Please input regulation information here. | ||
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===Allelic Information and Variation=== | ===Allelic Information and Variation=== | ||
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==References== | ==References== | ||
− | + | [http://www.lncrnadb.org/PDZK1IP1-AS1/ Annotation originally sourced from lncRNAdb.] | |
{{basic| | {{basic| | ||
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sequence = <dnaseq>GCCGCGCCTGAAGCTCAACTTCCGAGGCTCTCATCAATCTACGCTTCCTTTGGAGCGTGCAGCCACCAGGTGGCAGCCGAGGCCACGGGCAGACAGAAAAGCTCCCGAAACTGAAGGACTGCCAGGCAGCAGAGTTCCGGAGGGCTCCCAGGACCTTCAACCAGAAAGAGACAGAGCATATGCGCATATCCCTGCAAGGAATGTACTATAGAGCCAATTTTACCGGCAAAGGAATGGAAGATCTGAAAGGCTAGGCGATCCCACAAGCATCGAGGAGCAGGCTGGAATTTGAACCAATCGGCATGATTCCCAAGCTCAAGCTTTTGGCCACCCCTGCACTGCCAGGGACAAAAAAAAAAAAAAAAAAAAACCCTGGGAGGAGAGCCAAGCTAGGGAGTCAAGACCCTCCAGCCAGGTCTGGATGGGAGGCAGGTGCCTCCACCCTGGTCCCAGAGCAAGTTCTGCTGGCTTCAGCCACCTGACTTCCCTGTGAAGGTGGGTAGAGGCCAGAGCAGACTGTGTGTGATTCTGGCCCCAGCCCCAGCACCTCTACCCCCACCTTTACTACCCCTAGGCTGCGGGAAGAGGCTTTGCCCAGCAATAGTCCTGATCTAATGGATCCTTGAAGCACAATAAACAGATAGTATTTCTGCATGTGTCA</dnaseq>| | sequence = <dnaseq>GCCGCGCCTGAAGCTCAACTTCCGAGGCTCTCATCAATCTACGCTTCCTTTGGAGCGTGCAGCCACCAGGTGGCAGCCGAGGCCACGGGCAGACAGAAAAGCTCCCGAAACTGAAGGACTGCCAGGCAGCAGAGTTCCGGAGGGCTCCCAGGACCTTCAACCAGAAAGAGACAGAGCATATGCGCATATCCCTGCAAGGAATGTACTATAGAGCCAATTTTACCGGCAAAGGAATGGAAGATCTGAAAGGCTAGGCGATCCCACAAGCATCGAGGAGCAGGCTGGAATTTGAACCAATCGGCATGATTCCCAAGCTCAAGCTTTTGGCCACCCCTGCACTGCCAGGGACAAAAAAAAAAAAAAAAAAAAACCCTGGGAGGAGAGCCAAGCTAGGGAGTCAAGACCCTCCAGCCAGGTCTGGATGGGAGGCAGGTGCCTCCACCCTGGTCCCAGAGCAAGTTCTGCTGGCTTCAGCCACCTGACTTCCCTGTGAAGGTGGGTAGAGGCCAGAGCAGACTGTGTGTGATTCTGGCCCCAGCCCCAGCACCTCTACCCCCACCTTTACTACCCCTAGGCTGCGGGAAGAGGCTTTGCCCAGCAATAGTCCTGATCTAATGGATCCTTGAAGCACAATAAACAGATAGTATTTCTGCATGTGTCA</dnaseq>| | ||
}} | }} | ||
− | [[Category:Intergenic]] | + | [[Category:Intergenic]][[Category:ENSG00000224805.2]][[Category:lnc-CYP4A22-2]][[Category:Transcripts]] |
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Latest revision as of 03:40, 26 August 2015
Please input one-sentence summary here.
Contents
Annotated Information
Name
PDZK1IP1-AS1
Characteristics
Spliced, two exon 661nt transcript.
Transcribed bidirectionally with CYP4A22-AS1.
LincRNA catalogue from deep RNA sequencing suggests variation in transcript length and also potential alternative splicing ((Cabili 2011)).
Expressed downstream of TAL1 and PDZK1IP1 on the opposite strand.
In-vitro translation showed no sign of protein product.
Function
PDZK1IP1-AS1 expression appears to stimulate CMPK1 gene expression (in Jurkat cells). A gene located over 150 kb 3’ of PDZK1IP1-AS1 on the same strand.
Expression
Expressed in Jurkat cells, but not in MCF7 cells (unlike CYP4A22-AS1).
Conservation
Please input conservation information here.
Misc
Please input misc information here.
Transcriptomic Nomeclature
Please input transcriptomic nomeclature information here.
Regulation
Please input regulation information here.
Allelic Information and Variation
Please input allelic information and variation information here.
Evolution
Please input evolution information here.
You can also add sub-section(s) at will.
Labs working on this lncRNA
Please input related labs here.
References
Annotation originally sourced from lncRNAdb.
Basic Information
Transcript ID |
ENST00000429328.2 |
Source |
Gencode19 |
Same with |
lnc-CYP4A22-2:2 |
Classification |
intergenic |
Length |
661 nt |
Genomic location |
chr1+:47644922..47646011 |
Exon number |
2 |
Exons |
47644922..47645110,47645540..47646011 |
Genome context |
|
Sequence |
000001 GCCGCGCCTG AAGCTCAACT TCCGAGGCTC TCATCAATCT ACGCTTCCTT TGGAGCGTGC AGCCACCAGG TGGCAGCCGA 000080
000081 GGCCACGGGC AGACAGAAAA GCTCCCGAAA CTGAAGGACT GCCAGGCAGC AGAGTTCCGG AGGGCTCCCA GGACCTTCAA 000160 000161 CCAGAAAGAG ACAGAGCATA TGCGCATATC CCTGCAAGGA ATGTACTATA GAGCCAATTT TACCGGCAAA GGAATGGAAG 000240 000241 ATCTGAAAGG CTAGGCGATC CCACAAGCAT CGAGGAGCAG GCTGGAATTT GAACCAATCG GCATGATTCC CAAGCTCAAG 000320 000321 CTTTTGGCCA CCCCTGCACT GCCAGGGACA AAAAAAAAAA AAAAAAAAAA CCCTGGGAGG AGAGCCAAGC TAGGGAGTCA 000400 000401 AGACCCTCCA GCCAGGTCTG GATGGGAGGC AGGTGCCTCC ACCCTGGTCC CAGAGCAAGT TCTGCTGGCT TCAGCCACCT 000480 000481 GACTTCCCTG TGAAGGTGGG TAGAGGCCAG AGCAGACTGT GTGTGATTCT GGCCCCAGCC CCAGCACCTC TACCCCCACC 000560 000561 TTTACTACCC CTAGGCTGCG GGAAGAGGCT TTGCCCAGCA ATAGTCCTGA TCTAATGGAT CCTTGAAGCA CAATAAACAG 000640 000641 ATAGTATTTC TGCATGTGTC A |
Predicted Small Protein
Name | ENST00000429328.2_smProtein_302:481 |
Length | 60 |
Molecular weight | 6204.2967 |
Aromaticity | 0.0169491525424 |
Instability index | 47.2508474576 |
Isoelectric point | 10.8190307617 |
Runs | 8 |
Runs residual | 0.00886331830197 |
Runs probability | 0.0172893481718 |
Amino acid sequence | MIPKLKLLATPALPGTKKKKKKNPGRRAKLGSQDPPARSGWEAGASTLVPEQVLLASAT |
Secondary structure | LLLLLEEELLLLLLLLLLLLLLLLLLLEELLLLLLLLLLLLLLLLLLLLHHHEEEELLL |
PRMN | - |
PiMo | - |
Name | ENST00000429328.2_smProtein_302:481 |
Length | 59 |
Molecular weight | 6204.2967 |
Aromaticity | 0.0169491525424 |
Instability index | 47.2508474576 |
Isoelectric point | 10.8190307617 |
Runs | 8 |
Runs residual | 0.00886331830197 |
Runs probability | 0.0172893481718 |
Amino acid sequence | MIPKLKLLATPALPGTKKKKKKNPGRRAKLGSQDPPARSGWEAGASTLVPEQVLLASAT |
Secondary structure | LLLLLEEELLLLLLLLLLLLLLLLLLLEELLLLLLLLLLLLLLLLLLLLHHHEEEELLL |
PRMN | - |
PiMo | - |