Non-Coding RNA Search

Ss1.1-Mixc-0025p14.5

Sequence:


               
               TATAGGCTGATTGAGCAGGAGAGGAAGGGATCGAAATTGCCATGTGTATAAAGCTTTATT
TCTTTAACCCTACACCCCAGGCTCAGGGAAATACCCTATATGATTCTGCTCCCTTGACTC
CTGTAACTCATTTTCCTCCTATTCTGGAGCAGGGTAAGGAGGACATAATGGGTAACGGAC
ATGCTGGCGTGGCTCTACCCACTTCTCAGATGCTCTTCTTTGCACAGTCATGGGGCCCAC
GTGGTAGTCCCCACCTGTCTCCAGTCCTATATTTTTTGTCTTCCCCAGGCCAAGATCCAA
GGGACCCTTTCTCCTCCCCTTCCCGTCTTTACCATTTCCTCCTTTCTTTTCAGTGCCTTA
GCCGGGGTGAGGAGATAAGGATGCCCTTCTTGCCTTTTATACCTGCACATTCATACCTCT
CCAAGAACCCCTCCTGCTGCCCCAGTGACTGATGGACAGAACTACCAGCTTCTCTACTTA
GGAACCCCTGTGAGAGGGACTTTGGTAGGGCCATGATAAGGTGGTGAGGCCTGGTTTTGC
TCAGGGTTTCCATCCTTCCTCTTCTCCCTCTCTGACTGGATGTGCTTGTAAGATGGTCAC
ACCTGGGAACCCTAACAACTGTCTACACAAGTTCGAAAAGCAAAGGTTTTGGTCTCTGTG
GCCTTGTGATCAGATGTGCCCAACCTCACTAGGGAACTGAGGGACCCTCAATATCTCAGG
AGCTTGGTCCTCATACAGAGGGGCTAGAGGCTGACTCTTGGTAGAAATGGGAAGAGGCAA
TGGAGGATTTATTCCTCCTTTGGGATTTGGGGAGAGCCAAGTTCTGGTGGGGAGGAGGTA
AGGGAGATGATTCATCTCTCTTATTTCCTAAGCAGGCTCTGTACAGAGCCTTGAGGAGGG
AGAAGTCTGTTTTCACCAATAACTTGTGATTTTGTGATTAAAAAAAAAGTTCCTCTATTC
TGCAAATCATATATTATCTCCCAATTCAATCCAATCAATTTATTTTAAATTAAACATAAA
AACATAAAATTATATATCTATTCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TATAGGCTGATTGAGCAGGAGAGGAAGGGATCGAAATTGCCATGTGTATAAAGCTTTATT
TCTTTAACCCTACACCCCAGGCTCAGGGAAATACCCTATATGATTCTGCTCCCTTGACTC
CTGTAACTCATTTTCCTCCTATTCTGGAGCAGGGTAAGGAGGACATAATGGGTAACGGAC
ATGCTGGCGTGGCTCTACCCACTTCTCAGATGCTCTTCTTTGCACAGTCATGGGGCCCAC
GTGGTAGTCCCCACCTGTCTCCAGTCCTATATTTTTTGTCTTCCCCAGGCCAAGATCCAA
GGGACCCTTTCTCCTCCCCTTCCCGTCTTTACCATTTCCTCCTTTCTTTTCAGTGCCTTA
GCCGGGGTGAGGAGATAAGGATGCCCTTCTTGCCTTTTATACCTGCACATTCATACCTCT
CCAAGAACCCCTCCTGCTGCCCCAGTGACTGATGGACAGAACTACCAGCTTCTCTACTTA
GGAACCCCTGTGAGAGGGACTTTGGTAGGGCCATGATAAGGTGGTGAGGCCTGGTTTTGC
TCAGGGTTTCCATCCTTCCTCTTCTCCCTCTCTGACTGGATGTGCTTGTAAGATGGTCAC
ACCTGGGAACCCTAACAACTGTCTACACAAGTTCGAAAAGCAAAGGTTTTGGTCTCTGTG
GCCTTGTGATCAGATGTGCCCAACCTCACTAGGGAACTGAGGGACCCTCAATATCTCAGG
AGCTTGGTCCTCATACAGAGGGGCTAGAGGCTGACTCTTGGTAGAAATGGGAAGAGGCAA
TGGAGGATTTATTCCTCCTTTGGGATTTGGGGAGAGCCAAGTTCTGGTGGGGAGGAGGTA
AGGGAGATGATTCATCTCTCTTATTTCCTAAGCAGGCTCTGTACAGAGCCTTGAGGAGGG
AGAAGTCTGTTTTCACCAATAACTTGTGATTTTGTGATTAAAAAAAAAGTTCCTCTATTC
TGCAAATCATATATTATCTCCCAATTCAATCCAATCAATTTATTTTAAATTAAACATAAA
AACATAAAATTATATATCTATTCT

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

More info

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

Help | Less info


               
               230-344, - strand, RNAz p=0.99723
               

               
               728-956, - strand, RNAz p=0.998115
               

               
               800-911, - strand, RNAz p=0.936428

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


               
               230-344, - strand, RNAz p=0.99723
               

               
               728-956, - strand, RNAz p=0.998115
               

               
               800-911, - strand, RNAz p=0.936428

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               733-932, AM017596 KN-252-liver, Bos indicus Bos indicus cDNA clone 
(emb|AM017596.1|), blast E-value=0, identity=93% 
               

               
               733-932, CR452310 Normalized and Subtracted bovine embryonic and 
(emb|CR452310.2|), blast E-value=0, identity=93% 
               

               
               733-932, 4092168 BARC 10BOV Bos taurus cDNA clone 10BOV30_I23 3', mRNA 
(gb|CK952475.1|), blast E-value=0, identity=93% 
               

               
               733-932, 4102060 BARC 10BOV Bos taurus cDNA clone 10BOV9_F03 3', mRNA 
(gb|CK960876.1|), blast E-value=0, identity=93% 
               

               
               733-932, 4079985 BARC 9BOV Bos taurus cDNA clone 9BOV18_N10 3', mRNA 
(gb|CK964849.1|), blast E-value=0, identity=93% 
               

               
               728-939, UMC-pd6end2-011-a09 Endometrium gilt D6 of estrous cycle pd6end Sus 
(gb|CO993088.1|), blast E-value=0, identity=93.87%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               733-932, AM017596 KN-252-liver, Bos indicus Bos indicus cDNA clone 
(emb|AM017596.1|), blast E-value=0, identity=93% 
               

               
               733-932, CR452310 Normalized and Subtracted bovine embryonic and 
(emb|CR452310.2|), blast E-value=0, identity=93% 
               

               
               733-932, 4092168 BARC 10BOV Bos taurus cDNA clone 10BOV30_I23 3', mRNA 
(gb|CK952475.1|), blast E-value=0, identity=93% 
               

               
               733-932, 4102060 BARC 10BOV Bos taurus cDNA clone 10BOV9_F03 3', mRNA 
(gb|CK960876.1|), blast E-value=0, identity=93% 
               

               
               733-932, 4079985 BARC 9BOV Bos taurus cDNA clone 9BOV18_N10 3', mRNA 
(gb|CK964849.1|), blast E-value=0, identity=93% 
               

               
               728-939, UMC-pd6end2-011-a09 Endometrium gilt D6 of estrous cycle pd6end Sus 
(gb|CO993088.1|), blast E-value=0, identity=93.87%

Aligned organism(s): 16 entry(ies)

More info

Aligned organism(s): 16 entry(ies)

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               4-432, gnl|bosTau2|chr3 (11561393-11560961)
               

               
               4-432, gnl|Hg17|chr1 (148323171-148323575)
               

               
               4-432, gnl|Mm7|chr3 (94635048-94634620)
               


               
               433-1044, gnl|bosTau2|chr3 (11560933-11560314)
               

               
               433-1044, gnl|canFam2|chr17 (63656021-63656792)
               

               
               433-1044, gnl|echTel1|scaffold_320593 (44693-43925)
               

               
               433-1044, gnl|hg17|chr1 (148323441-148324218)
               

               
               433-1044, gnl|Hg17|chr1 (148323603-148324237)
               

               
               433-1044, gnl|loxAfr1|scaffold_824 (16903-16157)
               

               
               433-1044, gnl|mm7|chr3 (94535295-94534556)
               

               
               433-1044, gnl|Mm7|chr3 (94634592-94634022)
               

               
               433-1044, gnl|monDom2|scaffold_44 (4817892-4818666)
               

               
               433-1044, gnl|oryCun1|scaffold_208612 (5965-5184)
               

               
               433-1044, gnl|panTro1|chr1 (130075211-130075987)
               

               
               433-1044, gnl|rheMac2|chr1 (129976131-129976900)
               

               
               433-1044, gnl|rn3|chr2 (189597939-189597196)

Aligned organism(s): 16 entry(ies)

Help | Less info

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


               
               4-432, gnl|bosTau2|chr3 (11561393-11560961)
               

               
               4-432, gnl|Hg17|chr1 (148323171-148323575)
               

               
               4-432, gnl|Mm7|chr3 (94635048-94634620)
               


               
               433-1044, gnl|bosTau2|chr3 (11560933-11560314)
               

               
               433-1044, gnl|canFam2|chr17 (63656021-63656792)
               

               
               433-1044, gnl|echTel1|scaffold_320593 (44693-43925)
               

               
               433-1044, gnl|hg17|chr1 (148323441-148324218)
               

               
               433-1044, gnl|Hg17|chr1 (148323603-148324237)
               

               
               433-1044, gnl|loxAfr1|scaffold_824 (16903-16157)
               

               
               433-1044, gnl|mm7|chr3 (94535295-94534556)
               

               
               433-1044, gnl|Mm7|chr3 (94634592-94634022)
               

               
               433-1044, gnl|monDom2|scaffold_44 (4817892-4818666)
               

               
               433-1044, gnl|oryCun1|scaffold_208612 (5965-5184)
               

               
               433-1044, gnl|panTro1|chr1 (130075211-130075987)
               

               
               433-1044, gnl|rheMac2|chr1 (129976131-129976900)
               

               
               433-1044, gnl|rn3|chr2 (189597939-189597196)

Expressed library(ies): 8 entry(ies)

More info

Expressed library(ies): 8 entry(ies)

Help | Less info


               
               cst (0.280073)
               

               
               ill (0.175593)
               

               
               eye (0.170503)
               

               
               nco (0.161734)
               

               
               pla (0.133672)
               

               
               ova (0.129132)
               

               
               pgl (0.118483)
               

               
               jej (0.0989218)

Expressed library(ies): 8 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


               
               cst (0.280073)
               

               
               ill (0.175593)
               

               
               eye (0.170503)
               

               
               nco (0.161734)
               

               
               pla (0.133672)
               

               
               ova (0.129132)
               

               
               pgl (0.118483)
               

               
               jej (0.0989218)

	230-344, - strand, RNAz p=0.99723
	728-956, - strand, RNAz p=0.998115
	800-911, - strand, RNAz p=0.936428

	733-932, AM017596 KN-252-liver, Bos indicus Bos indicus cDNA clone (emb\|AM017596.1\|), blast E-value=0, identity=93%
	733-932, CR452310 Normalized and Subtracted bovine embryonic and (emb\|CR452310.2\|), blast E-value=0, identity=93%
	733-932, 4092168 BARC 10BOV Bos taurus cDNA clone 10BOV30_I23 3', mRNA (gb\|CK952475.1\|), blast E-value=0, identity=93%
	733-932, 4102060 BARC 10BOV Bos taurus cDNA clone 10BOV9_F03 3', mRNA (gb\|CK960876.1\|), blast E-value=0, identity=93%
	733-932, 4079985 BARC 9BOV Bos taurus cDNA clone 9BOV18_N10 3', mRNA (gb\|CK964849.1\|), blast E-value=0, identity=93%
	728-939, UMC-pd6end2-011-a09 Endometrium gilt D6 of estrous cycle pd6end Sus (gb\|CO993088.1\|), blast E-value=0, identity=93.87%

	4-432, gnl\|bosTau2\|chr3 (11561393-11560961)
	4-432, gnl\|Hg17\|chr1 (148323171-148323575)
	4-432, gnl\|Mm7\|chr3 (94635048-94634620)

	433-1044, gnl\|bosTau2\|chr3 (11560933-11560314)
	433-1044, gnl\|canFam2\|chr17 (63656021-63656792)
	433-1044, gnl\|echTel1\|scaffold_320593 (44693-43925)
	433-1044, gnl\|hg17\|chr1 (148323441-148324218)
	433-1044, gnl\|Hg17\|chr1 (148323603-148324237)
	433-1044, gnl\|loxAfr1\|scaffold_824 (16903-16157)
	433-1044, gnl\|mm7\|chr3 (94535295-94534556)
	433-1044, gnl\|Mm7\|chr3 (94634592-94634022)
	433-1044, gnl\|monDom2\|scaffold_44 (4817892-4818666)
	433-1044, gnl\|oryCun1\|scaffold_208612 (5965-5184)
	433-1044, gnl\|panTro1\|chr1 (130075211-130075987)
	433-1044, gnl\|rheMac2\|chr1 (129976131-129976900)
	433-1044, gnl\|rn3\|chr2 (189597939-189597196)

	cst (0.280073)
	ill (0.175593)
	eye (0.170503)
	nco (0.161734)
	pla (0.133672)
	ova (0.129132)
	pgl (0.118483)
	jej (0.0989218)