Non-Coding RNA Search

Ss1.1-Pig4-TMW8055D13.3

Sequence:


               
               GTTCTGGGGTTTGTTCTCTACCCTTTCAACCAATCACACCCCTGCCTTTTTTTTTTTTTT
TTTTTAAAGGAAAAGACAAAGGAAAAACGGAAGTGGTGTTCCCCACCCCTCCCTGCACCC
ATGTGCCTGGGCTTCCCCTTTGTTTCCCTTTTCCACTTACCCCCTCATGTGTGTCTCTAC
AGCCACCTTGCCACTGAGCCGTAAGACAAATGTATAGGGAGAAGCAAAGTCTATAGCACA
TAGTCTTTGTAAGGGATTGAAGTGATCTCTGCTTTTGGGTGCACTGAGGGGTTATCAGTA
CTCCTGGCTTTATGAGGGCTCTTAAATTTTGTCTGAAAAAACCAAAGGGCTGTGAGTAGG
GAGCTGTGTGGAAGGTGGGACTCTGGAGTGTATTTTGGAAATTAATCACCACCCTCTCCC
AAATTATAGAATTTTTAAAAAACAAGCTGTGGCCCTTTCCACTCTCTCCTGGCCTCTGGT
GCTGCTCCTTTCTGCCTTGTTTCCTCCATTCCATGGCTTGAAAACTTTGCCTGGTATGGC
TCCTTCCTTTTCCCTCTTTGTCAAACCCTCTTCAAAGGAGTAATAGGTAAGAGGACTAGG
TCAGCCCTACAGTCACCCTCCCAACTGTGGTGTGTGTGTGTACACACATACACAGGATGG
ATGAAGAGGTTGCTGGGTTAAAATACACTCCCCCTGAAAAGGGGAAGGGGGAGTGTGACA
TTTTCTTTCCATGTTCAAGTGAAAATAAATAATGTACCCTGCAGCCCTTTTCCCCTTTGC
TTTCTTCTGGCTTGGGCAAAGGGCATCACAGGTGAAAGTGAAGTGATTCAGTATCAATTC
CTTTCTTCTTTTTCCTTCCCCATCCTTTACCCCCACACCCACTCCCAAGCTTGGGAGCAT
GGGGCTGGGAGATGCACTGAGTGTCGCACTTTTATTTAGGTAGGAAGGCATGCTGAATGA
GCCAGGAGGCCTAGAACTGGAGCCCAGTGCAACTGGTACAACACCCCCTCCCCTTTCAGC
TTCAAAAAGGGATGTCCAGACACAGACTTTGTGATTATTATATTTTTTTCAATGCCAGTG
CTGCTCAGCCCTCAGCGTAACTTCAGTTTTCATGAAATAAACAGTGAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTTCTGGGGTTTGTTCTCTACCCTTTCAACCAATCACACCCCTGCCTTTTTTTTTTTTTT
TTTTTAAAGGAAAAGACAAAGGAAAAACGGAAGTGGTGTTCCCCACCCCTCCCTGCACCC
ATGTGCCTGGGCTTCCCCTTTGTTTCCCTTTTCCACTTACCCCCTCATGTGTGTCTCTAC
AGCCACCTTGCCACTGAGCCGTAAGACAAATGTATAGGGAGAAGCAAAGTCTATAGCACA
TAGTCTTTGTAAGGGATTGAAGTGATCTCTGCTTTTGGGTGCACTGAGGGGTTATCAGTA
CTCCTGGCTTTATGAGGGCTCTTAAATTTTGTCTGAAAAAACCAAAGGGCTGTGAGTAGG
GAGCTGTGTGGAAGGTGGGACTCTGGAGTGTATTTTGGAAATTAATCACCACCCTCTCCC
AAATTATAGAATTTTTAAAAAACAAGCTGTGGCCCTTTCCACTCTCTCCTGGCCTCTGGT
GCTGCTCCTTTCTGCCTTGTTTCCTCCATTCCATGGCTTGAAAACTTTGCCTGGTATGGC
TCCTTCCTTTTCCCTCTTTGTCAAACCCTCTTCAAAGGAGTAATAGGTAAGAGGACTAGG
TCAGCCCTACAGTCACCCTCCCAACTGTGGTGTGTGTGTGTACACACATACACAGGATGG
ATGAAGAGGTTGCTGGGTTAAAATACACTCCCCCTGAAAAGGGGAAGGGGGAGTGTGACA
TTTTCTTTCCATGTTCAAGTGAAAATAAATAATGTACCCTGCAGCCCTTTTCCCCTTTGC
TTTCTTCTGGCTTGGGCAAAGGGCATCACAGGTGAAAGTGAAGTGATTCAGTATCAATTC
CTTTCTTCTTTTTCCTTCCCCATCCTTTACCCCCACACCCACTCCCAAGCTTGGGAGCAT
GGGGCTGGGAGATGCACTGAGTGTCGCACTTTTATTTAGGTAGGAAGGCATGCTGAATGA
GCCAGGAGGCCTAGAACTGGAGCCCAGTGCAACTGGTACAACACCCCCTCCCCTTTCAGC
TTCAAAAAGGGATGTCCAGACACAGACTTTGTGATTATTATATTTTTTTCAATGCCAGTG
CTGCTCAGCCCTCAGCGTAACTTCAGTTTTCATGAAATAAACAGTGAC

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

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

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               1-158, - strand, RNAz p=0.996307
               

               
               279-396, - strand, RNAz p=0.745101
               

               
               593-978, + strand, RNAz p=0.99821

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


               
               1-158, - strand, RNAz p=0.996307
               

               
               279-396, - strand, RNAz p=0.745101
               

               
               593-978, + strand, RNAz p=0.99821

Predicted microRNA(s): 1 entry(ies)

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Predicted microRNA(s): 1 entry(ies)

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               19-123, - strand, RNAmicro p=0.997614

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


               
               19-123, - strand, RNAmicro p=0.997614

Similar Transcript(s): 12 entry(ies)

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Similar Transcript(s): 12 entry(ies)

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               66-155, DB507531 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB507531.1|), blast E-value=2e-25, identity=92.22% 
               

               
               89-46, BX390022 Homo sapiens HELA CELLS COT 25-NORMALIZED Homo sapiens 
(emb|BX390022.2|), blast E-value=0.0000000000002, identity=97.83% 
               

               
               89-46, CR740364 Soares melanocyte 2NbHM Homo sapiens cDNA clone 
(emb|CR740364.1|), blast E-value=0.0000000000002, identity=97.83% 
               

               
               66-158, MONO1_7_F09.g1_A005 Monocytes (MONO1) Equus caballus cDNA, mRNA 
(gb|BI961869.1|), blast E-value=5e-32, identity=95.7% 
               

               
               89-46, MMPL0009_H01 MMPL Macaca mulatta cDNA, mRNA sequence (gb|CB549930.1|), 
blast E-value=0.00000000001, identity=97.67% 
               

               
               66-46, nbc43c09.y1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus 
(gb|EB378822.1|), blast E-value=0.00000000004, identity=95.65% 
               

               
               642-978, POSM0100006_G04 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190217.1|), blast E-value=0, identity=100% 
               

               
               642-978, 961345 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK772770.1|), 
blast E-value=0, identity=90.88% 
               

               
               642-978, 4055800 BARC 8BOV Bos taurus cDNA clone 8BOV_23F18 5', mRNA 
(gb|CK832081.1|), blast E-value=0, identity=90.88% 
               

               
               642-978, 1393504 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN544534.1|), 
blast E-value=0, identity=90.88% 
               

               
               642-978, 1395040 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN545936.1|), 
blast E-value=0, identity=90.88% 
               

               
               642-978, HW_Fat_54_050811_A05 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV778217.1|), blast E-value=0, identity=90.88%

Similar Transcript(s): 12 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


               
               66-155, DB507531 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB507531.1|), blast E-value=2e-25, identity=92.22% 
               

               
               89-46, BX390022 Homo sapiens HELA CELLS COT 25-NORMALIZED Homo sapiens 
(emb|BX390022.2|), blast E-value=0.0000000000002, identity=97.83% 
               

               
               89-46, CR740364 Soares melanocyte 2NbHM Homo sapiens cDNA clone 
(emb|CR740364.1|), blast E-value=0.0000000000002, identity=97.83% 
               

               
               66-158, MONO1_7_F09.g1_A005 Monocytes (MONO1) Equus caballus cDNA, mRNA 
(gb|BI961869.1|), blast E-value=5e-32, identity=95.7% 
               

               
               89-46, MMPL0009_H01 MMPL Macaca mulatta cDNA, mRNA sequence (gb|CB549930.1|), 
blast E-value=0.00000000001, identity=97.67% 
               

               
               66-46, nbc43c09.y1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus 
(gb|EB378822.1|), blast E-value=0.00000000004, identity=95.65% 
               

               
               642-978, POSM0100006_G04 porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|BM190217.1|), blast E-value=0, identity=100% 
               

               
               642-978, 961345 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb|CK772770.1|), 
blast E-value=0, identity=90.88% 
               

               
               642-978, 4055800 BARC 8BOV Bos taurus cDNA clone 8BOV_23F18 5', mRNA 
(gb|CK832081.1|), blast E-value=0, identity=90.88% 
               

               
               642-978, 1393504 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN544534.1|), 
blast E-value=0, identity=90.88% 
               

               
               642-978, 1395040 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN545936.1|), 
blast E-value=0, identity=90.88% 
               

               
               642-978, HW_Fat_54_050811_A05 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV778217.1|), blast E-value=0, identity=90.88%

Homologous human UTR: 2 entry(ies)

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Homologous human UTR: 2 entry(ies)

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               3' of CR606194, -
               

               
               5' of NM_032998, +

Homologous human UTR: 2 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of CR606194, -
               

               
               5' of NM_032998, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1128, gnl|bosTau2|chr3 (7893828-7894952)
               

               
               1-1128, gnl|Hg17|chr1 (157904950-157903849)
               

               
               1-1128, gnl|Mm7|chr1 (171311359-171312415)

Aligned organism(s): 3 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


               
               1-1128, gnl|bosTau2|chr3 (7893828-7894952)
               

               
               1-1128, gnl|Hg17|chr1 (157904950-157903849)
               

               
               1-1128, gnl|Mm7|chr1 (171311359-171312415)

Expressed library(ies): 9 entry(ies)

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Expressed library(ies): 9 entry(ies)

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               eje (0.296501)
               

               
               pla (0.267344)
               

               
               nms (0.213858)
               

               
               mas (0.210305)
               

               
               cli (0.152812)
               

               
               eli (0.151814)
               

               
               cag (0.151194)
               

               
               nca (0.136874)
               

               
               cty (0.10408)

Expressed library(ies): 9 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


               
               eje (0.296501)
               

               
               pla (0.267344)
               

               
               nms (0.213858)
               

               
               mas (0.210305)
               

               
               cli (0.152812)
               

               
               eli (0.151814)
               

               
               cag (0.151194)
               

               
               nca (0.136874)
               

               
               cty (0.10408)

	1-158, - strand, RNAz p=0.996307
	279-396, - strand, RNAz p=0.745101
	593-978, + strand, RNAz p=0.99821

	66-155, DB507531 RIKEN full-length enriched human cDNA library, testis Homo (dbj\|DB507531.1\|), blast E-value=2e-25, identity=92.22%
	89-46, BX390022 Homo sapiens HELA CELLS COT 25-NORMALIZED Homo sapiens (emb\|BX390022.2\|), blast E-value=0.0000000000002, identity=97.83%
	89-46, CR740364 Soares melanocyte 2NbHM Homo sapiens cDNA clone (emb\|CR740364.1\|), blast E-value=0.0000000000002, identity=97.83%
	66-158, MONO1_7_F09.g1_A005 Monocytes (MONO1) Equus caballus cDNA, mRNA (gb\|BI961869.1\|), blast E-value=5e-32, identity=95.7%
	89-46, MMPL0009_H01 MMPL Macaca mulatta cDNA, mRNA sequence (gb\|CB549930.1\|), blast E-value=0.00000000001, identity=97.67%
	66-46, nbc43c09.y1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus (gb\|EB378822.1\|), blast E-value=0.00000000004, identity=95.65%
	642-978, POSM0100006_G04 porcine skeletal muscle cDNA library (PoSM) Sus (gb\|BM190217.1\|), blast E-value=0, identity=100%
	642-978, 961345 MARC 2BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK772770.1\|), blast E-value=0, identity=90.88%
	642-978, 4055800 BARC 8BOV Bos taurus cDNA clone 8BOV_23F18 5', mRNA (gb\|CK832081.1\|), blast E-value=0, identity=90.88%
	642-978, 1393504 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN544534.1\|), blast E-value=0, identity=90.88%
	642-978, 1395040 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN545936.1\|), blast E-value=0, identity=90.88%
	642-978, HW_Fat_54_050811_A05 Bos taurus CF-24-HW fat cDNA library Bos (gb\|DV778217.1\|), blast E-value=0, identity=90.88%

	1-1128, gnl\|bosTau2\|chr3 (7893828-7894952)
	1-1128, gnl\|Hg17\|chr1 (157904950-157903849)
	1-1128, gnl\|Mm7\|chr1 (171311359-171312415)

	eje (0.296501)
	pla (0.267344)
	nms (0.213858)
	mas (0.210305)
	cli (0.152812)
	eli (0.151814)
	cag (0.151194)
	nca (0.136874)
	cty (0.10408)