Non-Coding RNA Search

Ss1.1-rese08c_f1.5

Sequence:


               
               TTTTTTTTTTTTTTTTTTTGAGCACCCATTCAGAGCCATTTGACAGTGTGCTCTGCTTTG
TTGGTTTCACCAGCTTCTGCCCTAACACACAGGGACTTAATAAAAACCATAACTGACGCT
TCCCTTGTAGTCTCTTAGAGAAATGTAGTCATTTGTACCCTGCCCTCCTGTTGGAAGTGG
CAGGTGCTATTGGCATATGTGGGAATTTCTTAGAGGGACAAGGTTCTTAGGACACAAGTG
AGTTAGTAGTCACTTCTTTGCAAGCAATTCATCGACTATTATTGCTGAGAAGAAGCAGGA
AGAAAAATCCTTCTGGCAGTCTGGATTATTTCTTTAATAAAGATTTCTAGCAGTGTGGGT
GGATGAATGCAGTGGACTATGAACTTTGGGTGAGTTAAATGGGACAGCCTTTCATGTTCA
TCTGTCTACCTCTTAACTGAATAAAAAAAAAGGCTA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTTTTTTTTTTTTTTTTTGAGCACCCATTCAGAGCCATTTGACAGTGTGCTCTGCTTTG
TTGGTTTCACCAGCTTCTGCCCTAACACACAGGGACTTAATAAAAACCATAACTGACGCT
TCCCTTGTAGTCTCTTAGAGAAATGTAGTCATTTGTACCCTGCCCTCCTGTTGGAAGTGG
CAGGTGCTATTGGCATATGTGGGAATTTCTTAGAGGGACAAGGTTCTTAGGACACAAGTG
AGTTAGTAGTCACTTCTTTGCAAGCAATTCATCGACTATTATTGCTGAGAAGAAGCAGGA
AGAAAAATCCTTCTGGCAGTCTGGATTATTTCTTTAATAAAGATTTCTAGCAGTGTGGGT
GGATGAATGCAGTGGACTATGAACTTTGGGTGAGTTAAATGGGACAGCCTTTCATGTTCA
TCTGTCTACCTCTTAACTGAATAAAAAAAAAGGCTA

Predicted RNA structure(s): 3 entry(ies)

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Predicted RNA structure(s): 3 entry(ies)

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               1-113, - strand, RNAz p=0.990802
               

               
               114-229, + strand, RNAz p=0.57225
               

               
               260-372, - strand, RNAz p=0.999677

Predicted RNA structure(s): 3 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


               
               1-113, - strand, RNAz p=0.990802
               

               
               114-229, + strand, RNAz p=0.57225
               

               
               260-372, - strand, RNAz p=0.999677

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               260-331, OIJ603163170.R1 CSEQFN46 thyroid and parathyroid Bos taurus cDNA, 
(gb|CB171949.1|), blast E-value=0.000000000000007, identity=90.28% 
               

               
               260-331, DG2-18k21 DG2-brain Canis familiaris cDNA 3', mRNA sequence 
(gb|CO587989.1|), blast E-value=0.000000000000007, identity=90.28% 
               

               
               260-331, DG2-92p11 DG2-brain Canis familiaris cDNA 3', mRNA sequence 
(gb|CO594251.1|), blast E-value=0.000000000000007, identity=90.28% 
               

               
               260-372, POSM0605008_K13F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV898371.1|), blast E-value=0, identity=99.12% 
               

               
               260-335, 000925BEMN021660HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY119924.1|), blast E-value=0.000000000002, identity=88.16% 
               

               
               260-335, 1606321 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY465741.1|), 
blast E-value=0.000000000002, identity=88.16%

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


               
               260-331, OIJ603163170.R1 CSEQFN46 thyroid and parathyroid Bos taurus cDNA, 
(gb|CB171949.1|), blast E-value=0.000000000000007, identity=90.28% 
               

               
               260-331, DG2-18k21 DG2-brain Canis familiaris cDNA 3', mRNA sequence 
(gb|CO587989.1|), blast E-value=0.000000000000007, identity=90.28% 
               

               
               260-331, DG2-92p11 DG2-brain Canis familiaris cDNA 3', mRNA sequence 
(gb|CO594251.1|), blast E-value=0.000000000000007, identity=90.28% 
               

               
               260-372, POSM0605008_K13F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV898371.1|), blast E-value=0, identity=99.12% 
               

               
               260-335, 000925BEMN021660HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY119924.1|), blast E-value=0.000000000002, identity=88.16% 
               

               
               260-335, 1606321 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb|DY465741.1|), 
blast E-value=0.000000000002, identity=88.16%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_005415, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_005415, +

Aligned organism(s): 22 entry(ies)

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Aligned organism(s): 22 entry(ies)

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               1-447, gnl|bosTau2|chr11 (33387829-33387382)
               

               
               1-447, gnl|canFam2|chr17 (39990865-39991239)
               

               
               1-447, gnl|canFam2|chr17 (39990755-39991120)
               

               
               1-447, gnl|dasNov1|scaffold_70994 (5961-5597)
               

               
               1-447, gnl|dasNov1|scaffold_971 (14783-15135)
               

               
               1-447, gnl|echTel1|scaffold_307392 (3914-3555)
               

               
               1-447, gnl|echTel1|scaffold_307392 (4015-3671)
               

               
               1-447, gnl|hg17|chr2 (113137143-113137515)
               

               
               1-447, gnl|Hg17|chr2 (113137163-113137614)
               

               
               1-447, gnl|hg17|chr21 (9882594-9882966)
               

               
               1-447, gnl|mm7|chr2 (128952113-128952468)
               

               
               1-447, gnl|mm7|chr2 (128951995-128952350)
               

               
               1-447, gnl|Mm7|chr2 (128952016-128952448)
               

               
               1-447, gnl|monDom2|scaffold_63 (6525951-6525588)
               

               
               1-447, gnl|oryCun1|scaffold_172498 (8441-8083)
               

               
               1-447, gnl|oryCun1|scaffold_172498 (8569-8203)
               

               
               1-447, gnl|panTro1|chr12 (116271005-116271377)
               

               
               1-447, gnl|panTro1|chr16 (28243280-28243644)
               

               
               1-447, gnl|rheMac2|chr13 (112022625-112022977)
               

               
               1-447, gnl|rheMac2|chr13 (112022497-112022869)
               

               
               1-447, gnl|rn3|chr3 (116733279-116733634)
               

               
               1-447, gnl|rn3|chr3 (116733166-116733516)

Aligned organism(s): 22 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


               
               1-447, gnl|bosTau2|chr11 (33387829-33387382)
               

               
               1-447, gnl|canFam2|chr17 (39990865-39991239)
               

               
               1-447, gnl|canFam2|chr17 (39990755-39991120)
               

               
               1-447, gnl|dasNov1|scaffold_70994 (5961-5597)
               

               
               1-447, gnl|dasNov1|scaffold_971 (14783-15135)
               

               
               1-447, gnl|echTel1|scaffold_307392 (3914-3555)
               

               
               1-447, gnl|echTel1|scaffold_307392 (4015-3671)
               

               
               1-447, gnl|hg17|chr2 (113137143-113137515)
               

               
               1-447, gnl|Hg17|chr2 (113137163-113137614)
               

               
               1-447, gnl|hg17|chr21 (9882594-9882966)
               

               
               1-447, gnl|mm7|chr2 (128952113-128952468)
               

               
               1-447, gnl|mm7|chr2 (128951995-128952350)
               

               
               1-447, gnl|Mm7|chr2 (128952016-128952448)
               

               
               1-447, gnl|monDom2|scaffold_63 (6525951-6525588)
               

               
               1-447, gnl|oryCun1|scaffold_172498 (8441-8083)
               

               
               1-447, gnl|oryCun1|scaffold_172498 (8569-8203)
               

               
               1-447, gnl|panTro1|chr12 (116271005-116271377)
               

               
               1-447, gnl|panTro1|chr16 (28243280-28243644)
               

               
               1-447, gnl|rheMac2|chr13 (112022625-112022977)
               

               
               1-447, gnl|rheMac2|chr13 (112022497-112022869)
               

               
               1-447, gnl|rn3|chr3 (116733279-116733634)
               

               
               1-447, gnl|rn3|chr3 (116733166-116733516)

Expressed library(ies): 12 entry(ies)

More info

Expressed library(ies): 12 entry(ies)

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               thg (0.380373)
               

               
               sag (0.36543)
               

               
               spc (0.226732)
               

               
               eje (0.197668)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               cli (0.152812)
               

               
               cov (0.132153)
               

               
               kid (0.129735)
               

               
               ese (0.126502)
               

               
               eru (0.120048)
               

               
               clu (0.119646)

Expressed library(ies): 12 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


               
               thg (0.380373)
               

               
               sag (0.36543)
               

               
               spc (0.226732)
               

               
               eje (0.197668)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               cli (0.152812)
               

               
               cov (0.132153)
               

               
               kid (0.129735)
               

               
               ese (0.126502)
               

               
               eru (0.120048)
               

               
               clu (0.119646)

	1-113, - strand, RNAz p=0.990802
	114-229, + strand, RNAz p=0.57225
	260-372, - strand, RNAz p=0.999677

	260-331, OIJ603163170.R1 CSEQFN46 thyroid and parathyroid Bos taurus cDNA, (gb\|CB171949.1\|), blast E-value=0.000000000000007, identity=90.28%
	260-331, DG2-18k21 DG2-brain Canis familiaris cDNA 3', mRNA sequence (gb\|CO587989.1\|), blast E-value=0.000000000000007, identity=90.28%
	260-331, DG2-92p11 DG2-brain Canis familiaris cDNA 3', mRNA sequence (gb\|CO594251.1\|), blast E-value=0.000000000000007, identity=90.28%
	260-372, POSM0605008_K13F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV898371.1\|), blast E-value=0, identity=99.12%
	260-335, 000925BEMN021660HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY119924.1\|), blast E-value=0.000000000002, identity=88.16%
	260-335, 1606321 MARC 11BOV Bos taurus cDNA 3', mRNA sequence (gb\|DY465741.1\|), blast E-value=0.000000000002, identity=88.16%

	1-447, gnl\|bosTau2\|chr11 (33387829-33387382)
	1-447, gnl\|canFam2\|chr17 (39990865-39991239)
	1-447, gnl\|canFam2\|chr17 (39990755-39991120)
	1-447, gnl\|dasNov1\|scaffold_70994 (5961-5597)
	1-447, gnl\|dasNov1\|scaffold_971 (14783-15135)
	1-447, gnl\|echTel1\|scaffold_307392 (3914-3555)
	1-447, gnl\|echTel1\|scaffold_307392 (4015-3671)
	1-447, gnl\|hg17\|chr2 (113137143-113137515)
	1-447, gnl\|Hg17\|chr2 (113137163-113137614)
	1-447, gnl\|hg17\|chr21 (9882594-9882966)
	1-447, gnl\|mm7\|chr2 (128952113-128952468)
	1-447, gnl\|mm7\|chr2 (128951995-128952350)
	1-447, gnl\|Mm7\|chr2 (128952016-128952448)
	1-447, gnl\|monDom2\|scaffold_63 (6525951-6525588)
	1-447, gnl\|oryCun1\|scaffold_172498 (8441-8083)
	1-447, gnl\|oryCun1\|scaffold_172498 (8569-8203)
	1-447, gnl\|panTro1\|chr12 (116271005-116271377)
	1-447, gnl\|panTro1\|chr16 (28243280-28243644)
	1-447, gnl\|rheMac2\|chr13 (112022625-112022977)
	1-447, gnl\|rheMac2\|chr13 (112022497-112022869)
	1-447, gnl\|rn3\|chr3 (116733279-116733634)
	1-447, gnl\|rn3\|chr3 (116733166-116733516)

	thg (0.380373)
	sag (0.36543)
	spc (0.226732)
	eje (0.197668)
	sin (0.174948)
	rec (0.17307)
	cli (0.152812)
	cov (0.132153)
	kid (0.129735)
	ese (0.126502)
	eru (0.120048)
	clu (0.119646)