Non-Coding RNA Search

Ss1.1-Pig4-TMW8027K14.3

Sequence:


               
               CTGAGAAGGATGTCAAAAGATCGGCTCAGCTCAGGGTGCAGTTTGCACTACTAGCTCCTT
GGACAGCTGTAAGAAGAGTCTCTGGCTCTTTAGACTACTGGATGAATTCTGAGCCGGTAC
CCCCACCTCAAGAGGAAGGATGGATCAATTTTAGGTGAATTGAAGCCTATACTAAACAGC
CTCCAAAGGATATTCCAAGCAAGTGAGCCCTGAGACTGCAAGCAGCTCTAAGAAGTTCCG
CATTGATCAGGTCTTCCCTTTTGAGAATCTGGATAAGCTCCAACCAATCTAAAAGGATGG
TTTGCAGACTGTCTGGAGAAAAAGATCTTCCTCAGAAGAATAGGCTTGTTGCCTTACAGT
GTTAGTGACTCATTCCCTTTGATGATCCTTAGGTGGAGATGGGGCATGAGGATCCTCCAG
GGGAAAAGCTCACTACCACTGGGCAACAACCCTAGGTCAGGAGATTCTACTAAGATTCTT
TCCTGGGTCCAGATAGGAAGATGAAGTCTCAAGACAACCACCACACATCTGAGGAAAACA
GGGACAACAACTGCCATATCTTACATTCATCATGACATTCATCATGAGCAGATCATAATT
CTGGACCCTTTGATCCCCAAAGCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTGAGAAGGATGTCAAAAGATCGGCTCAGCTCAGGGTGCAGTTTGCACTACTAGCTCCTT
GGACAGCTGTAAGAAGAGTCTCTGGCTCTTTAGACTACTGGATGAATTCTGAGCCGGTAC
CCCCACCTCAAGAGGAAGGATGGATCAATTTTAGGTGAATTGAAGCCTATACTAAACAGC
CTCCAAAGGATATTCCAAGCAAGTGAGCCCTGAGACTGCAAGCAGCTCTAAGAAGTTCCG
CATTGATCAGGTCTTCCCTTTTGAGAATCTGGATAAGCTCCAACCAATCTAAAAGGATGG
TTTGCAGACTGTCTGGAGAAAAAGATCTTCCTCAGAAGAATAGGCTTGTTGCCTTACAGT
GTTAGTGACTCATTCCCTTTGATGATCCTTAGGTGGAGATGGGGCATGAGGATCCTCCAG
GGGAAAAGCTCACTACCACTGGGCAACAACCCTAGGTCAGGAGATTCTACTAAGATTCTT
TCCTGGGTCCAGATAGGAAGATGAAGTCTCAAGACAACCACCACACATCTGAGGAAAACA
GGGACAACAACTGCCATATCTTACATTCATCATGACATTCATCATGAGCAGATCATAATT
CTGGACCCTTTGATCCCCAAAGCC

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               323-440, - strand, RNAz p=0.942984
               

               
               336-452, - strand, RNAz p=0.978274

Predicted RNA structure(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted RNA structure by RNAz,
PigEST conread reading direction of predicted structure,
ncRNA classificator p of RNAz


               
               323-440, - strand, RNAz p=0.942984
               

               
               336-452, - strand, RNAz p=0.978274

Predicted microRNA(s): 2 entry(ies)

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Predicted microRNA(s): 2 entry(ies)

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               338-484, - strand, RNAmicro p=1
               

               
               342-455, + strand, RNAmicro p=0.999923

Predicted microRNA(s): 2 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               338-484, - strand, RNAmicro p=1
               

               
               342-455, + strand, RNAmicro p=0.999923

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               336-452, BP871616 Sugano cDNA library, embryonal kidney Homo sapiens cDNA 
(dbj|BP871616.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA328097 BRHIP3 Homo sapiens cDNA clone BRHIP3024318 5', mRNA 
(dbj|DA328097.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA623038 KIDNE2 Homo sapiens cDNA clone KIDNE2002402 5', mRNA 
(dbj|DA623038.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA774098 OCBBF2 Homo sapiens cDNA clone OCBBF2007718 5', mRNA 
(dbj|DA774098.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA834264 PLACE4 Homo sapiens cDNA clone PLACE4000146 5', mRNA 
(dbj|DA834264.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DKFZp781F2477_r1 781 (synonym (emb|BX956260.1|), blast 
E-value=4.06377e-44, identity=94.87%

Similar Transcript(s): 6 entry(ies)

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PigEST conread start position and end position of sequence similarity to another annotated EST (NCBI dbEST),
transcript identifier and annotation,
blast E-value,
PigEST conread identity to the similar transcript


               
               336-452, BP871616 Sugano cDNA library, embryonal kidney Homo sapiens cDNA 
(dbj|BP871616.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA328097 BRHIP3 Homo sapiens cDNA clone BRHIP3024318 5', mRNA 
(dbj|DA328097.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA623038 KIDNE2 Homo sapiens cDNA clone KIDNE2002402 5', mRNA 
(dbj|DA623038.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA774098 OCBBF2 Homo sapiens cDNA clone OCBBF2007718 5', mRNA 
(dbj|DA774098.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DA834264 PLACE4 Homo sapiens cDNA clone PLACE4000146 5', mRNA 
(dbj|DA834264.1|), blast E-value=4.06377e-44, identity=94.87% 
               

               
               336-452, DKFZp781F2477_r1 781 (synonym (emb|BX956260.1|), blast 
E-value=4.06377e-44, identity=94.87%

Aligned organism(s): 12 entry(ies)

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Aligned organism(s): 12 entry(ies)

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               323-529, gnl|bosTau2|chr24 (6302637-6302843)
               

               
               323-529, gnl|canFam2|chrX (60383277-60383783)
               

               
               323-529, gnl|dasNov1|scaffold_90329 (5276-5751)
               

               
               323-529, gnl|echTel1|scaffold_303488 (4962-4473)
               

               
               323-529, gnl|hg17|chrX (72833710-72834227)
               

               
               323-529, gnl|Hg17|chrX (72834132-72833925)
               

               
               323-529, gnl|loxAfr1|scaffold_31002 (11833-12334)
               

               
               323-529, gnl|mm7|chrX (98796843-98797256)
               

               
               323-529, gnl|Mm7|chrX (98797162-98796957)
               

               
               323-529, gnl|panTro1|chrX (75270767-75271277)
               

               
               323-529, gnl|rheMac2|chrX (72953216-72953726)
               

               
               323-529, gnl|rn3|chrX (91528326-91528811)

Aligned organism(s): 12 entry(ies)

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PigEST conread start position and end position of the aligned locus,
aligned organism with chromosome (chromosome position)
closely related Artiodactyla cow is linked to the PigEST - Genome Map


               
               323-529, gnl|bosTau2|chr24 (6302637-6302843)
               

               
               323-529, gnl|canFam2|chrX (60383277-60383783)
               

               
               323-529, gnl|dasNov1|scaffold_90329 (5276-5751)
               

               
               323-529, gnl|echTel1|scaffold_303488 (4962-4473)
               

               
               323-529, gnl|hg17|chrX (72833710-72834227)
               

               
               323-529, gnl|Hg17|chrX (72834132-72833925)
               

               
               323-529, gnl|loxAfr1|scaffold_31002 (11833-12334)
               

               
               323-529, gnl|mm7|chrX (98796843-98797256)
               

               
               323-529, gnl|Mm7|chrX (98797162-98796957)
               

               
               323-529, gnl|panTro1|chrX (75270767-75271277)
               

               
               323-529, gnl|rheMac2|chrX (72953216-72953726)
               

               
               323-529, gnl|rn3|chrX (91528326-91528811)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               ste (0.135208)
               

               
               nmm (0.132802)

Expressed library(ies): 2 entry(ies)

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Short name of the library (expression score),
see https://rth.dk/resources/pigest/download/pigest_kvl_1.0.1/cDNA_names.html for library description


               
               ste (0.135208)
               

               
               nmm (0.132802)

	323-440, - strand, RNAz p=0.942984
	336-452, - strand, RNAz p=0.978274

	338-484, - strand, RNAmicro p=1
	342-455, + strand, RNAmicro p=0.999923

	336-452, BP871616 Sugano cDNA library, embryonal kidney Homo sapiens cDNA (dbj\|BP871616.1\|), blast E-value=4.06377e-44, identity=94.87%
	336-452, DA328097 BRHIP3 Homo sapiens cDNA clone BRHIP3024318 5', mRNA (dbj\|DA328097.1\|), blast E-value=4.06377e-44, identity=94.87%
	336-452, DA623038 KIDNE2 Homo sapiens cDNA clone KIDNE2002402 5', mRNA (dbj\|DA623038.1\|), blast E-value=4.06377e-44, identity=94.87%
	336-452, DA774098 OCBBF2 Homo sapiens cDNA clone OCBBF2007718 5', mRNA (dbj\|DA774098.1\|), blast E-value=4.06377e-44, identity=94.87%
	336-452, DA834264 PLACE4 Homo sapiens cDNA clone PLACE4000146 5', mRNA (dbj\|DA834264.1\|), blast E-value=4.06377e-44, identity=94.87%
	336-452, DKFZp781F2477_r1 781 (synonym (emb\|BX956260.1\|), blast E-value=4.06377e-44, identity=94.87%

	323-529, gnl\|bosTau2\|chr24 (6302637-6302843)
	323-529, gnl\|canFam2\|chrX (60383277-60383783)
	323-529, gnl\|dasNov1\|scaffold_90329 (5276-5751)
	323-529, gnl\|echTel1\|scaffold_303488 (4962-4473)
	323-529, gnl\|hg17\|chrX (72833710-72834227)
	323-529, gnl\|Hg17\|chrX (72834132-72833925)
	323-529, gnl\|loxAfr1\|scaffold_31002 (11833-12334)
	323-529, gnl\|mm7\|chrX (98796843-98797256)
	323-529, gnl\|Mm7\|chrX (98797162-98796957)
	323-529, gnl\|panTro1\|chrX (75270767-75271277)
	323-529, gnl\|rheMac2\|chrX (72953216-72953726)
	323-529, gnl\|rn3\|chrX (91528326-91528811)