Non-Coding RNA Search

Ss1.1-Pig4-TMW8036M06.3

Sequence:


               
               TTGGTTCCAGGGACTTGGTTTCCTGCCTGTGCAGGGTAAGGAAGGTAGTTGGCAGGCTAG
GCCAGGAGGCCAGTCTCATCTTTTTCTGGAGCAGGAATTGGTGATAAGGGCTGGATCTCT
CCACCCTGTTCTGAGAGATGCTTCTTTCCCCAGCTTTTTTTTTTTTTTTCCTTTGAGAGT
TGATGGCAGTGAAGGTATTTACACAGAAGGCCGGGAAGAAATAGGGCCTCAGAGCAGCAA
GAGCACTGCTTGGACATTTGCTACTTTTCCCAGAGTTAGGGAAGGGTTGAAGTTTGAACT
TCCCTTGGAAGAAAGCCAGAGGCTAGTTGATTCTCCTCAGCAGCCATGTGGGAGGGTACT
GAAATATTTACTCTTTAGCCAGACTTTCAGGAGGTTAAACATTCTTGCTGGGTCTAGTGT
GATGCCCATATCCTTGCTTTTCTTTACTTCCATCTCTGCATTTAAATGGACAGGTTAGGT
ATTACGACCTTGGCTTTTCATAAGATTTACCTGTCTGCTTCCCTGAGTTAGGGAGGGTCT
GTTGGTGAGGGCCTAGAATTTAAGAACTGTGGAGAACTGAAAACTGGATAAACAAGTCCT
TTTTCTTGCCCCTATGTCTCAGATGCACTTCTTTATTTGCCACTGTTTGGCGGAAGTAGT
CTGTTAATTTCCCCTCCCATTTGCCAGGTGTGTCACTATTTCTGGGATTGTGGGATTAAA
AACTTCTTTCCCCACTTCCCTTCACAATAACTGGGGCAAGGGCCCACGGGGAGGGGCTTG
TATTGAACTATTTAGTGATCATGTTAACACCTAACTCTCCTTCTTTCTTCCAGGGGCCGG
GCTAGAGCGACATCATGGTATTCCCCTTACTAAAAAAAGTGTGTATTAGGAGGAGAGAGA
GGAAAAAAAGAGAAAAGAAGGAAAAAAAAAAAGAATAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTGGTTCCAGGGACTTGGTTTCCTGCCTGTGCAGGGTAAGGAAGGTAGTTGGCAGGCTAG
GCCAGGAGGCCAGTCTCATCTTTTTCTGGAGCAGGAATTGGTGATAAGGGCTGGATCTCT
CCACCCTGTTCTGAGAGATGCTTCTTTCCCCAGCTTTTTTTTTTTTTTTCCTTTGAGAGT
TGATGGCAGTGAAGGTATTTACACAGAAGGCCGGGAAGAAATAGGGCCTCAGAGCAGCAA
GAGCACTGCTTGGACATTTGCTACTTTTCCCAGAGTTAGGGAAGGGTTGAAGTTTGAACT
TCCCTTGGAAGAAAGCCAGAGGCTAGTTGATTCTCCTCAGCAGCCATGTGGGAGGGTACT
GAAATATTTACTCTTTAGCCAGACTTTCAGGAGGTTAAACATTCTTGCTGGGTCTAGTGT
GATGCCCATATCCTTGCTTTTCTTTACTTCCATCTCTGCATTTAAATGGACAGGTTAGGT
ATTACGACCTTGGCTTTTCATAAGATTTACCTGTCTGCTTCCCTGAGTTAGGGAGGGTCT
GTTGGTGAGGGCCTAGAATTTAAGAACTGTGGAGAACTGAAAACTGGATAAACAAGTCCT
TTTTCTTGCCCCTATGTCTCAGATGCACTTCTTTATTTGCCACTGTTTGGCGGAAGTAGT
CTGTTAATTTCCCCTCCCATTTGCCAGGTGTGTCACTATTTCTGGGATTGTGGGATTAAA
AACTTCTTTCCCCACTTCCCTTCACAATAACTGGGGCAAGGGCCCACGGGGAGGGGCTTG
TATTGAACTATTTAGTGATCATGTTAACACCTAACTCTCCTTCTTTCTTCCAGGGGCCGG
GCTAGAGCGACATCATGGTATTCCCCTTACTAAAAAAAGTGTGTATTAGGAGGAGAGAGA
GGAAAAAAAGAGAAAAGAAGGAAAAAAAAAAAGAATAAAAAAAAAAAA

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

More info

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

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               61-168, - strand, RNAz p=0.933059
               

               
               191-292, + strand, RNAz p=0.939265
               

               
               612-715, - strand, RNAz p=0.531257
               

               
               819-938, + strand, RNAz p=0.999171

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


               
               61-168, - strand, RNAz p=0.933059
               

               
               191-292, + strand, RNAz p=0.939265
               

               
               612-715, - strand, RNAz p=0.531257
               

               
               819-938, + strand, RNAz p=0.999171

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               819-901, BP479054 Rattus norvegicus pancreatic islet Rattus norvegicus cDNA 
(dbj|BP479054.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, BP486964 Rattus norvegicus insulinoma RINm5F Rattus norvegicus cDNA 
(dbj|BP486964.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, DB813163 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813163.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, DB816541 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|DB816541.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, DB818046 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB818046.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, RVL24542 Wackym-Soares normalized rat vestibular cDNA library 
(gb|DY473139.1|), blast E-value=1e-25, identity=91.57%

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


               
               819-901, BP479054 Rattus norvegicus pancreatic islet Rattus norvegicus cDNA 
(dbj|BP479054.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, BP486964 Rattus norvegicus insulinoma RINm5F Rattus norvegicus cDNA 
(dbj|BP486964.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, DB813163 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813163.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, DB816541 full-length enriched swine cDNA library, adult spleen Sus 
(dbj|DB816541.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, DB818046 full-length enriched swine cDNA library, adult thymus Sus 
(dbj|DB818046.1|), blast E-value=1e-25, identity=91.57% 
               

               
               819-901, RVL24542 Wackym-Soares normalized rat vestibular cDNA library 
(gb|DY473139.1|), blast E-value=1e-25, identity=91.57%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_004643, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_004643, +

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               1-292, gnl|bosTau2|chr10 (13795327-13795042)
               

               
               1-292, gnl|canFam2|chr8 (6587661-6588206)
               

               
               1-292, gnl|echTel1|scaffold_284825 (91385-90849)
               

               
               1-292, gnl|hg17|chr14 (22863345-22863934)
               

               
               1-292, gnl|Hg17|chr14 (22863439-22863740)
               

               
               1-292, gnl|loxAfr1|scaffold_62460 (2813-3357)
               

               
               1-292, gnl|mm7|chr14 (49764213-49764689)
               

               
               1-292, gnl|Mm7|chr14 (49764303-49764536)
               

               
               1-292, gnl|monDom2|scaffold_12 (26399742-26399193)
               

               
               1-292, gnl|panTro1|chr15 (21835819-21836409)
               

               
               1-292, gnl|rheMac2|chr7 (86164407-86164998)
               

               
               1-292, gnl|rn3|chr15 (33013179-33013641)
               


               
               308-948, gnl|bosTau2|chr10 (13795045-13794383)
               

               
               308-948, gnl|Hg17|chr14 (22863737-22864409)

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


               
               1-292, gnl|bosTau2|chr10 (13795327-13795042)
               

               
               1-292, gnl|canFam2|chr8 (6587661-6588206)
               

               
               1-292, gnl|echTel1|scaffold_284825 (91385-90849)
               

               
               1-292, gnl|hg17|chr14 (22863345-22863934)
               

               
               1-292, gnl|Hg17|chr14 (22863439-22863740)
               

               
               1-292, gnl|loxAfr1|scaffold_62460 (2813-3357)
               

               
               1-292, gnl|mm7|chr14 (49764213-49764689)
               

               
               1-292, gnl|Mm7|chr14 (49764303-49764536)
               

               
               1-292, gnl|monDom2|scaffold_12 (26399742-26399193)
               

               
               1-292, gnl|panTro1|chr15 (21835819-21836409)
               

               
               1-292, gnl|rheMac2|chr7 (86164407-86164998)
               

               
               1-292, gnl|rn3|chr15 (33013179-33013641)
               


               
               308-948, gnl|bosTau2|chr10 (13795045-13794383)
               

               
               308-948, gnl|Hg17|chr14 (22863737-22864409)

Expressed library(ies): 17 entry(ies)

More info

Expressed library(ies): 17 entry(ies)

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               nco (0.323468)
               

               
               med (0.232504)
               

               
               fcc (0.197785)
               

               
               cmu (0.186393)
               

               
               fty (0.17584)
               

               
               eye (0.170503)
               

               
               cje (0.165235)
               

               
               spl (0.143184)
               

               
               pty (0.142714)
               

               
               cst (0.140036)
               

               
               hlv (0.139256)
               

               
               che (0.136314)
               

               
               nmm (0.132802)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               jej (0.0989218)

Expressed library(ies): 17 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


               
               nco (0.323468)
               

               
               med (0.232504)
               

               
               fcc (0.197785)
               

               
               cmu (0.186393)
               

               
               fty (0.17584)
               

               
               eye (0.170503)
               

               
               cje (0.165235)
               

               
               spl (0.143184)
               

               
               pty (0.142714)
               

               
               cst (0.140036)
               

               
               hlv (0.139256)
               

               
               che (0.136314)
               

               
               nmm (0.132802)
               

               
               pgl (0.118483)
               

               
               ebs (0.118301)
               

               
               ecc (0.115035)
               

               
               jej (0.0989218)

	61-168, - strand, RNAz p=0.933059
	191-292, + strand, RNAz p=0.939265
	612-715, - strand, RNAz p=0.531257
	819-938, + strand, RNAz p=0.999171

	819-901, BP479054 Rattus norvegicus pancreatic islet Rattus norvegicus cDNA (dbj\|BP479054.1\|), blast E-value=1e-25, identity=91.57%
	819-901, BP486964 Rattus norvegicus insulinoma RINm5F Rattus norvegicus cDNA (dbj\|BP486964.1\|), blast E-value=1e-25, identity=91.57%
	819-901, DB813163 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB813163.1\|), blast E-value=1e-25, identity=91.57%
	819-901, DB816541 full-length enriched swine cDNA library, adult spleen Sus (dbj\|DB816541.1\|), blast E-value=1e-25, identity=91.57%
	819-901, DB818046 full-length enriched swine cDNA library, adult thymus Sus (dbj\|DB818046.1\|), blast E-value=1e-25, identity=91.57%
	819-901, RVL24542 Wackym-Soares normalized rat vestibular cDNA library (gb\|DY473139.1\|), blast E-value=1e-25, identity=91.57%

	1-292, gnl\|bosTau2\|chr10 (13795327-13795042)
	1-292, gnl\|canFam2\|chr8 (6587661-6588206)
	1-292, gnl\|echTel1\|scaffold_284825 (91385-90849)
	1-292, gnl\|hg17\|chr14 (22863345-22863934)
	1-292, gnl\|Hg17\|chr14 (22863439-22863740)
	1-292, gnl\|loxAfr1\|scaffold_62460 (2813-3357)
	1-292, gnl\|mm7\|chr14 (49764213-49764689)
	1-292, gnl\|Mm7\|chr14 (49764303-49764536)
	1-292, gnl\|monDom2\|scaffold_12 (26399742-26399193)
	1-292, gnl\|panTro1\|chr15 (21835819-21836409)
	1-292, gnl\|rheMac2\|chr7 (86164407-86164998)
	1-292, gnl\|rn3\|chr15 (33013179-33013641)

	308-948, gnl\|bosTau2\|chr10 (13795045-13794383)
	308-948, gnl\|Hg17\|chr14 (22863737-22864409)

	nco (0.323468)
	med (0.232504)
	fcc (0.197785)
	cmu (0.186393)
	fty (0.17584)
	eye (0.170503)
	cje (0.165235)
	spl (0.143184)
	pty (0.142714)
	cst (0.140036)
	hlv (0.139256)
	che (0.136314)
	nmm (0.132802)
	pgl (0.118483)
	ebs (0.118301)
	ecc (0.115035)
	jej (0.0989218)