Non-Coding RNA Search

Ss1.1-Pig4-TMW8043A14.3

Sequence:


               
               TTTCTTTCCGTGGGAGGGGCAGAGAGGTAGGCGGCGCAGCAGATGGGGCTTTATGCTTGT
AAATACTGATAGCACTGGCTTCCTCCGAAGTCCCACTACTCTAGCCCCGCTCTCTTCCCC
TCTCTCCGTCCCCCATTTTCCAGGGGGCTTATGGTCAGGGCTCCCAACCTGAGTTGGGTC
ACTTCCAAGGGCAGGCCGGGATCAAAGGCCTCGGAAGCCCTTGCCTGCCTTCCTCCCACT
TTTTTCTCCAGGCCTGGCTAACTCTTCCGTTGCCAGCTTCTCCCACTTCAGCCTGTTTCT
CAAGCAGCCAGAAGGGTTCTCCCCCTTCACCCTCTGCAGGTGGAGAGAGAGAAGCTGGGC
CCAGTTTGGCCACGCCTGCTGGCACAGACGCCTTAACGCTGTGTGTGTGACTGTGTAACT
GTGTGGGAGCCTGGACTGACAGACAGGCCGAGAGCCACCCTCTGGCATCTCCAGGTGTTT
TGTAGCAAACAGCCACTTAGTGCTTTGTCCTGGACTCCACTCAGCCTCAGGATGGGGAAT
AGGAAAGACGGGCAGCCTCAGTGCAGAGAGGCGAGATCAGAAAGCCACGGGGTCAGGAGG
GTTTCCTCTCCGGAGGTCGAGGTCTCTCCGGAGCCCCTTCCCTGCACTGTGACGTCCCCT
GACTGCCCTGCTGTATCACAGACGGCATTAAGGAAGCTGCTAGTGGGCCGGGCCGAGCCG
AGCCTCCTTGTCCGCCTGCCCGCCCGCCTCGGGAGCCCAGTGGGGGGGCCCATCGAAGGC
CCGAGGGCAGAAGTGCTGGAGTGACCGCTGAGGTGAAGAAGGCAGCCTTCGGCCTCCACT
CGCACACTTCTTTGCCTCTGGAACTTGCTGGCAGCAGTGTGAGCTGTCGTGGAGGAGGAG
GTGGGGCAGGAAGGGCGAGGGCCTGCCTCTGACTTGCCCTGTCCTCTGCAGGCTCCTGGG
GAGAGTGGGGCTCTCCTCGAGGGAGGGAAGGGGGAGGCTGGGCCCCCTTCTCAGCTTGTT
CTATTCCCCCACTCACACCCCCAGGCAGGGTTGGAAATGAAGGACTTTTTTAACCTTTTG
TTTTTGTTTTTTAAAAATAAATCCATAAAATCTGTTAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTCTTTCCGTGGGAGGGGCAGAGAGGTAGGCGGCGCAGCAGATGGGGCTTTATGCTTGT
AAATACTGATAGCACTGGCTTCCTCCGAAGTCCCACTACTCTAGCCCCGCTCTCTTCCCC
TCTCTCCGTCCCCCATTTTCCAGGGGGCTTATGGTCAGGGCTCCCAACCTGAGTTGGGTC
ACTTCCAAGGGCAGGCCGGGATCAAAGGCCTCGGAAGCCCTTGCCTGCCTTCCTCCCACT
TTTTTCTCCAGGCCTGGCTAACTCTTCCGTTGCCAGCTTCTCCCACTTCAGCCTGTTTCT
CAAGCAGCCAGAAGGGTTCTCCCCCTTCACCCTCTGCAGGTGGAGAGAGAGAAGCTGGGC
CCAGTTTGGCCACGCCTGCTGGCACAGACGCCTTAACGCTGTGTGTGTGACTGTGTAACT
GTGTGGGAGCCTGGACTGACAGACAGGCCGAGAGCCACCCTCTGGCATCTCCAGGTGTTT
TGTAGCAAACAGCCACTTAGTGCTTTGTCCTGGACTCCACTCAGCCTCAGGATGGGGAAT
AGGAAAGACGGGCAGCCTCAGTGCAGAGAGGCGAGATCAGAAAGCCACGGGGTCAGGAGG
GTTTCCTCTCCGGAGGTCGAGGTCTCTCCGGAGCCCCTTCCCTGCACTGTGACGTCCCCT
GACTGCCCTGCTGTATCACAGACGGCATTAAGGAAGCTGCTAGTGGGCCGGGCCGAGCCG
AGCCTCCTTGTCCGCCTGCCCGCCCGCCTCGGGAGCCCAGTGGGGGGGCCCATCGAAGGC
CCGAGGGCAGAAGTGCTGGAGTGACCGCTGAGGTGAAGAAGGCAGCCTTCGGCCTCCACT
CGCACACTTCTTTGCCTCTGGAACTTGCTGGCAGCAGTGTGAGCTGTCGTGGAGGAGGAG
GTGGGGCAGGAAGGGCGAGGGCCTGCCTCTGACTTGCCCTGTCCTCTGCAGGCTCCTGGG
GAGAGTGGGGCTCTCCTCGAGGGAGGGAAGGGGGAGGCTGGGCCCCCTTCTCAGCTTGTT
CTATTCCCCCACTCACACCCCCAGGCAGGGTTGGAAATGAAGGACTTTTTTAACCTTTTG
TTTTTGTTTTTTAAAAATAAATCCATAAAATCTGTTAAAAAAAAAAAA

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               81-391, - strand, RNAz p=0.995386
               

               
               149-282, - strand, RNAz p=0.95835
               

               
               729-1069, - strand, RNAz p=0.977147
               

               
               884-1002, - strand, RNAz p=0.905297

Predicted RNA structure(s): 4 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


               
               81-391, - strand, RNAz p=0.995386
               

               
               149-282, - strand, RNAz p=0.95835
               

               
               729-1069, - strand, RNAz p=0.977147
               

               
               884-1002, - strand, RNAz p=0.905297

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               273-378, - strand, RNAmicro p=1
               

               
               920-987, + strand, RNAmicro p=0.990145
               

               
               928-1047, - strand, RNAmicro p=0.943569

Predicted microRNA(s): 3 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


               
               273-378, - strand, RNAmicro p=1
               

               
               920-987, + strand, RNAmicro p=0.990145
               

               
               928-1047, - strand, RNAmicro p=0.943569

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               81-391, BW964903 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BW964903.1|), blast E-value=0, identity=99.68% 
               

               
               81-391, DB789526 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB789526.1|), blast E-value=0, identity=99.68% 
               

               
               81-391, DKFZp459L119_r1 459 (synonym (emb|CR541535.1|), blast E-value=0, 
identity=87.77% 
               

               
               81-391, HESC2_6_H10.g1_A035 NIH_MGC_258 Homo sapiens cDNA clone 
(gb|CX163607.1|), blast E-value=0, identity=87.77% 
               

               
               81-391, HESC4_123_A03.g1_A037 NIH_MGC_262 Homo sapiens cDNA clone 
(gb|DR760983.1|), blast E-value=0, identity=87.77% 
               

               
               81-391, 186856 Pigtailed macaque testis library Macaca nemestrina cDNA 5', 
(gb|DY747738.1|), blast E-value=0, identity=87.77%

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


               
               81-391, BW964903 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|BW964903.1|), blast E-value=0, identity=99.68% 
               

               
               81-391, DB789526 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB789526.1|), blast E-value=0, identity=99.68% 
               

               
               81-391, DKFZp459L119_r1 459 (synonym (emb|CR541535.1|), blast E-value=0, 
identity=87.77% 
               

               
               81-391, HESC2_6_H10.g1_A035 NIH_MGC_258 Homo sapiens cDNA clone 
(gb|CX163607.1|), blast E-value=0, identity=87.77% 
               

               
               81-391, HESC4_123_A03.g1_A037 NIH_MGC_262 Homo sapiens cDNA clone 
(gb|DR760983.1|), blast E-value=0, identity=87.77% 
               

               
               81-391, 186856 Pigtailed macaque testis library Macaca nemestrina cDNA 5', 
(gb|DY747738.1|), blast E-value=0, identity=87.77%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               1-1112, gnl|bosTau2|chr2 (71830174-71829069)
               

               
               1-1112, gnl|canFam2|chr2 (71003475-71002362)
               

               
               1-1112, gnl|dasNov1|scaffold_4980 (96615-95484)
               

               
               1-1112, gnl|echTel1|scaffold_314821 (68204-67116)
               

               
               1-1112, gnl|hg17|chr1 (33458299-33459397)
               

               
               1-1112, gnl|Hg17|chr1 (33459389-33458322)
               

               
               1-1112, gnl|loxAfr1|scaffold_5522 (14586-15720)
               

               
               1-1112, gnl|mm7|chr4 (128197543-128196492)
               

               
               1-1112, gnl|Mm7|chr4 (128196498-128197519)
               

               
               1-1112, gnl|monDom2|scaffold_43 (2833077-2834225)
               

               
               1-1112, gnl|oryCun1|scaffold_94308 (410-1452)
               

               
               1-1112, gnl|panTro1|chr1 (34196471-34197569)
               

               
               1-1112, gnl|rheMac2|chr1 (36107355-36108458)
               

               
               1-1112, gnl|rn3|chr5 (147988916-147987916)

Aligned organism(s): 14 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


               
               1-1112, gnl|bosTau2|chr2 (71830174-71829069)
               

               
               1-1112, gnl|canFam2|chr2 (71003475-71002362)
               

               
               1-1112, gnl|dasNov1|scaffold_4980 (96615-95484)
               

               
               1-1112, gnl|echTel1|scaffold_314821 (68204-67116)
               

               
               1-1112, gnl|hg17|chr1 (33458299-33459397)
               

               
               1-1112, gnl|Hg17|chr1 (33459389-33458322)
               

               
               1-1112, gnl|loxAfr1|scaffold_5522 (14586-15720)
               

               
               1-1112, gnl|mm7|chr4 (128197543-128196492)
               

               
               1-1112, gnl|Mm7|chr4 (128196498-128197519)
               

               
               1-1112, gnl|monDom2|scaffold_43 (2833077-2834225)
               

               
               1-1112, gnl|oryCun1|scaffold_94308 (410-1452)
               

               
               1-1112, gnl|panTro1|chr1 (34196471-34197569)
               

               
               1-1112, gnl|rheMac2|chr1 (36107355-36108458)
               

               
               1-1112, gnl|rn3|chr5 (147988916-147987916)

Expressed library(ies): 16 entry(ies)

More info

Expressed library(ies): 16 entry(ies)

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               fce (0.543183)
               

               
               nmm (0.398406)
               

               
               nlu (0.383362)
               

               
               fbs (0.350693)
               

               
               hyp (0.285673)
               

               
               clu (0.239292)
               

               
               tes (0.207814)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               cag (0.151194)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               cly (0.120642)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               eje (0.0988338)

Expressed library(ies): 16 entry(ies)

Help | Less info

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


               
               fce (0.543183)
               

               
               nmm (0.398406)
               

               
               nlu (0.383362)
               

               
               fbs (0.350693)
               

               
               hyp (0.285673)
               

               
               clu (0.239292)
               

               
               tes (0.207814)
               

               
               nep (0.183925)
               

               
               fty (0.17584)
               

               
               cag (0.151194)
               

               
               nca (0.136874)
               

               
               che (0.136314)
               

               
               cly (0.120642)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               eje (0.0988338)

	81-391, - strand, RNAz p=0.995386
	149-282, - strand, RNAz p=0.95835
	729-1069, - strand, RNAz p=0.977147
	884-1002, - strand, RNAz p=0.905297

	273-378, - strand, RNAmicro p=1
	920-987, + strand, RNAmicro p=0.990145
	928-1047, - strand, RNAmicro p=0.943569

	81-391, BW964903 full-length enriched swine cDNA library, adult ovary Sus (dbj\|BW964903.1\|), blast E-value=0, identity=99.68%
	81-391, DB789526 full-length enriched swine cDNA library, adult adrenal (dbj\|DB789526.1\|), blast E-value=0, identity=99.68%
	81-391, DKFZp459L119_r1 459 (synonym (emb\|CR541535.1\|), blast E-value=0, identity=87.77%
	81-391, HESC2_6_H10.g1_A035 NIH_MGC_258 Homo sapiens cDNA clone (gb\|CX163607.1\|), blast E-value=0, identity=87.77%
	81-391, HESC4_123_A03.g1_A037 NIH_MGC_262 Homo sapiens cDNA clone (gb\|DR760983.1\|), blast E-value=0, identity=87.77%
	81-391, 186856 Pigtailed macaque testis library Macaca nemestrina cDNA 5', (gb\|DY747738.1\|), blast E-value=0, identity=87.77%

	1-1112, gnl\|bosTau2\|chr2 (71830174-71829069)
	1-1112, gnl\|canFam2\|chr2 (71003475-71002362)
	1-1112, gnl\|dasNov1\|scaffold_4980 (96615-95484)
	1-1112, gnl\|echTel1\|scaffold_314821 (68204-67116)
	1-1112, gnl\|hg17\|chr1 (33458299-33459397)
	1-1112, gnl\|Hg17\|chr1 (33459389-33458322)
	1-1112, gnl\|loxAfr1\|scaffold_5522 (14586-15720)
	1-1112, gnl\|mm7\|chr4 (128197543-128196492)
	1-1112, gnl\|Mm7\|chr4 (128196498-128197519)
	1-1112, gnl\|monDom2\|scaffold_43 (2833077-2834225)
	1-1112, gnl\|oryCun1\|scaffold_94308 (410-1452)
	1-1112, gnl\|panTro1\|chr1 (34196471-34197569)
	1-1112, gnl\|rheMac2\|chr1 (36107355-36108458)
	1-1112, gnl\|rn3\|chr5 (147988916-147987916)

	fce (0.543183)
	nmm (0.398406)
	nlu (0.383362)
	fbs (0.350693)
	hyp (0.285673)
	clu (0.239292)
	tes (0.207814)
	nep (0.183925)
	fty (0.17584)
	cag (0.151194)
	nca (0.136874)
	che (0.136314)
	cly (0.120642)
	ebs (0.118301)
	ecc (0.115035)
	eje (0.0988338)