Non-Coding RNA Search

Ss1.1-rhlv40b_m18.5

Sequence:


               
               AAGTATTGTAGAAGCTTCCAAGGGTTGCCAGCTGGGGAAGACAGAGCAGGGCTTTGAAAA
CATGGACTACTTCACTTTGAACTTAGAGCACATAGCAGACACCCTGAGGGCCATCGACTT
TGGGACAGATGAGGAAGAGGAAGAGTTCATTGAAGAAGAAGAAGAAGACCAGGAAGAGGA
AGAGGCCACAGAGGGAAAGGAAGAAGCACACCAGTAAAAGGAGCTGGATGATGGAGAGAC
CCTCTAGATGCAGAGAGACTGGGGAGGGTGGGGATGGGCCCAGATGCCTTGGTGACAGGC
CCAGGGTGGGAGGGGTCGGGCCCCTGGAGGGGCAACGGGGAGGTGTGTCTTCTCTCTGCT
CAGAGAGCAGGAACTAGGAGTAGGACCCCACCGCTGTGTCCAGCGTTGAGAACCAGATTT
GGAAACATGCTTGAAACAACCATACTGGATACTTTTCTACGTTGGTGCAGAATGGAATAT
TTTGTACGTTTTTAAAATGTGATTTTTGTATATACTTGTATATGTATGCCGATTTGGTGC
TTTTTGTAAAGGAACTTTTGTATGATAACGCCTGGTCATTGTGTGACTGGCGATTATTAT
AAAGAAGGGAAGGAAGCCAGGTTGATACAGCTGCCCACTTCCTTCCCTTGGCGGGAGGGC
TGGGTGGCCCTCACAGGCCTAGGAAGGGATAACGTACTGTATTTCAATGTCAATTCCTGA
CATAAGGGACGGTAACCGAGTTTGTGTTATATGTTGTTTTAATAAATGCACAGCGCTTTC
TTCTACTTATTA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAGTATTGTAGAAGCTTCCAAGGGTTGCCAGCTGGGGAAGACAGAGCAGGGCTTTGAAAA
CATGGACTACTTCACTTTGAACTTAGAGCACATAGCAGACACCCTGAGGGCCATCGACTT
TGGGACAGATGAGGAAGAGGAAGAGTTCATTGAAGAAGAAGAAGAAGACCAGGAAGAGGA
AGAGGCCACAGAGGGAAAGGAAGAAGCACACCAGTAAAAGGAGCTGGATGATGGAGAGAC
CCTCTAGATGCAGAGAGACTGGGGAGGGTGGGGATGGGCCCAGATGCCTTGGTGACAGGC
CCAGGGTGGGAGGGGTCGGGCCCCTGGAGGGGCAACGGGGAGGTGTGTCTTCTCTCTGCT
CAGAGAGCAGGAACTAGGAGTAGGACCCCACCGCTGTGTCCAGCGTTGAGAACCAGATTT
GGAAACATGCTTGAAACAACCATACTGGATACTTTTCTACGTTGGTGCAGAATGGAATAT
TTTGTACGTTTTTAAAATGTGATTTTTGTATATACTTGTATATGTATGCCGATTTGGTGC
TTTTTGTAAAGGAACTTTTGTATGATAACGCCTGGTCATTGTGTGACTGGCGATTATTAT
AAAGAAGGGAAGGAAGCCAGGTTGATACAGCTGCCCACTTCCTTCCCTTGGCGGGAGGGC
TGGGTGGCCCTCACAGGCCTAGGAAGGGATAACGTACTGTATTTCAATGTCAATTCCTGA
CATAAGGGACGGTAACCGAGTTTGTGTTATATGTTGTTTTAATAAATGCACAGCGCTTTC
TTCTACTTATTA

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

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

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               244-398, - strand, RNAz p=0.99971
               

               
               557-674, + strand, RNAz p=0.93597

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


               
               244-398, - strand, RNAz p=0.99971
               

               
               557-674, + strand, RNAz p=0.93597

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               546-624, + strand, RNAmicro p=0.908299

Predicted microRNA(s): 1 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


               
               546-624, + strand, RNAmicro p=0.908299

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               244-398, POSM0100009_D05F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190355.1|), blast E-value=0, identity=97.44% 
               

               
               244-398, 1457174 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887456.1|), 
blast E-value=0, identity=96.79% 
               

               
               244-398, 1460438 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT898021.1|), 
blast E-value=0, identity=96.79% 
               

               
               244-398, Hw_loin_20_050629_B12 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV793717.1|), blast E-value=0, identity=96.79% 
               

               
               244-398, Hw_loin_EST_b33-2Hw_G10 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV796308.1|), blast E-value=0, identity=96.79% 
               

               
               244-398, PADT0811011_H20R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB415759.1|), blast E-value=0, identity=100%

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


               
               244-398, POSM0100009_D05F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190355.1|), blast E-value=0, identity=97.44% 
               

               
               244-398, 1457174 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887456.1|), 
blast E-value=0, identity=96.79% 
               

               
               244-398, 1460438 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT898021.1|), 
blast E-value=0, identity=96.79% 
               

               
               244-398, Hw_loin_20_050629_B12 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV793717.1|), blast E-value=0, identity=96.79% 
               

               
               244-398, Hw_loin_EST_b33-2Hw_G10 Bos taurus CF-24-HW loin cDNA library Bos 
(gb|DV796308.1|), blast E-value=0, identity=96.79% 
               

               
               244-398, PADT0811011_H20R porcine adipose tissue cDNA library (PADT) Sus 
(gb|EB415759.1|), blast E-value=0, identity=100%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               5' of NM_032588, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_032588, +

Aligned organism(s): 21 entry(ies)

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Aligned organism(s): 21 entry(ies)

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               2-134, gnl|bosTau2|chr2 (79767369-79767501)
               

               
               2-134, gnl|canFam2|chr2 (76797290-76797180)
               

               
               2-134, gnl|danRer3|chr20 (45704099-45704197)
               

               
               2-134, gnl|dasNov1|scaffold_56512 (7808-7702)
               

               
               2-134, gnl|echTel1|scaffold_321058 (171780-171890)
               

               
               2-134, gnl|galGal2|chrUn (106449-106351)
               

               
               2-134, gnl|hg17|chr1 (26067821-26067931)
               

               
               2-134, gnl|Hg17|chr1 (26067962-26067830)
               

               
               2-134, gnl|loxAfr1|scaffold_3331 (58373-58481)
               

               
               2-134, gnl|mm7|chr4 (133704161-133704052)
               

               
               2-134, gnl|Mm7|chr4 (133704019-133704151)
               

               
               2-134, gnl|monDom2|scaffold_91 (3545516-3545635)
               

               
               2-134, gnl|oryCun1|scaffold_112929 (4605-4490)
               

               
               2-134, gnl|panTro1|chr1 (26752728-26752838)
               

               
               2-134, gnl|rheMac2|chr1 (28671917-28672027)
               

               
               2-134, gnl|rn3|chr5 (153079435-153079325)
               

               
               2-134, gnl|tetNig1|chr2 (18624205-18624294)
               

               
               2-134, gnl|xenTro1|scaffold_654 (120561-120463)
               


               
               205-783, gnl|bosTau2|chr2 (79772998-79773564)
               

               
               205-783, gnl|Hg17|chr1 (26062518-26061949)
               

               
               205-783, gnl|Mm7|chr4 (133707340-133707868)

Aligned organism(s): 21 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


               
               2-134, gnl|bosTau2|chr2 (79767369-79767501)
               

               
               2-134, gnl|canFam2|chr2 (76797290-76797180)
               

               
               2-134, gnl|danRer3|chr20 (45704099-45704197)
               

               
               2-134, gnl|dasNov1|scaffold_56512 (7808-7702)
               

               
               2-134, gnl|echTel1|scaffold_321058 (171780-171890)
               

               
               2-134, gnl|galGal2|chrUn (106449-106351)
               

               
               2-134, gnl|hg17|chr1 (26067821-26067931)
               

               
               2-134, gnl|Hg17|chr1 (26067962-26067830)
               

               
               2-134, gnl|loxAfr1|scaffold_3331 (58373-58481)
               

               
               2-134, gnl|mm7|chr4 (133704161-133704052)
               

               
               2-134, gnl|Mm7|chr4 (133704019-133704151)
               

               
               2-134, gnl|monDom2|scaffold_91 (3545516-3545635)
               

               
               2-134, gnl|oryCun1|scaffold_112929 (4605-4490)
               

               
               2-134, gnl|panTro1|chr1 (26752728-26752838)
               

               
               2-134, gnl|rheMac2|chr1 (28671917-28672027)
               

               
               2-134, gnl|rn3|chr5 (153079435-153079325)
               

               
               2-134, gnl|tetNig1|chr2 (18624205-18624294)
               

               
               2-134, gnl|xenTro1|scaffold_654 (120561-120463)
               


               
               205-783, gnl|bosTau2|chr2 (79772998-79773564)
               

               
               205-783, gnl|Hg17|chr1 (26062518-26061949)
               

               
               205-783, gnl|Mm7|chr4 (133707340-133707868)

Expressed library(ies): 7 entry(ies)

More info

Expressed library(ies): 7 entry(ies)

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               che (0.68157)
               

               
               hlv (0.557025)
               

               
               ssp (0.406559)
               

               
               sme (0.305437)
               

               
               ldo (0.194005)
               

               
               ctl (0.153069)
               

               
               nca (0.136874)

Expressed library(ies): 7 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


               
               che (0.68157)
               

               
               hlv (0.557025)
               

               
               ssp (0.406559)
               

               
               sme (0.305437)
               

               
               ldo (0.194005)
               

               
               ctl (0.153069)
               

               
               nca (0.136874)

	244-398, - strand, RNAz p=0.99971
	557-674, + strand, RNAz p=0.93597

	244-398, POSM0100009_D05F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|BM190355.1\|), blast E-value=0, identity=97.44%
	244-398, 1457174 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT887456.1\|), blast E-value=0, identity=96.79%
	244-398, 1460438 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT898021.1\|), blast E-value=0, identity=96.79%
	244-398, Hw_loin_20_050629_B12 Bos taurus CF-24-HW loin cDNA library Bos (gb\|DV793717.1\|), blast E-value=0, identity=96.79%
	244-398, Hw_loin_EST_b33-2Hw_G10 Bos taurus CF-24-HW loin cDNA library Bos (gb\|DV796308.1\|), blast E-value=0, identity=96.79%
	244-398, PADT0811011_H20R porcine adipose tissue cDNA library (PADT) Sus (gb\|EB415759.1\|), blast E-value=0, identity=100%

	2-134, gnl\|bosTau2\|chr2 (79767369-79767501)
	2-134, gnl\|canFam2\|chr2 (76797290-76797180)
	2-134, gnl\|danRer3\|chr20 (45704099-45704197)
	2-134, gnl\|dasNov1\|scaffold_56512 (7808-7702)
	2-134, gnl\|echTel1\|scaffold_321058 (171780-171890)
	2-134, gnl\|galGal2\|chrUn (106449-106351)
	2-134, gnl\|hg17\|chr1 (26067821-26067931)
	2-134, gnl\|Hg17\|chr1 (26067962-26067830)
	2-134, gnl\|loxAfr1\|scaffold_3331 (58373-58481)
	2-134, gnl\|mm7\|chr4 (133704161-133704052)
	2-134, gnl\|Mm7\|chr4 (133704019-133704151)
	2-134, gnl\|monDom2\|scaffold_91 (3545516-3545635)
	2-134, gnl\|oryCun1\|scaffold_112929 (4605-4490)
	2-134, gnl\|panTro1\|chr1 (26752728-26752838)
	2-134, gnl\|rheMac2\|chr1 (28671917-28672027)
	2-134, gnl\|rn3\|chr5 (153079435-153079325)
	2-134, gnl\|tetNig1\|chr2 (18624205-18624294)
	2-134, gnl\|xenTro1\|scaffold_654 (120561-120463)

	205-783, gnl\|bosTau2\|chr2 (79772998-79773564)
	205-783, gnl\|Hg17\|chr1 (26062518-26061949)
	205-783, gnl\|Mm7\|chr4 (133707340-133707868)

	che (0.68157)
	hlv (0.557025)
	ssp (0.406559)
	sme (0.305437)
	ldo (0.194005)
	ctl (0.153069)
	nca (0.136874)