Non-Coding RNA Search

Ss1.1-Pig4-TMW8064A09.5

Sequence:


               
               GCGGGCGTTTGCCAGAGGAACCCAGCTGGGTGGAGAGTGAGCAGGTGGCCGGGACTGCCC
CATGGTGGCCAGTGAGGCTGTTCTGGACGTGCACTTGTCGGCTCCAGTTGTGGTTGAGAC
GAGATGAACGTGAGCGAGGCTGAACCAGGGGAGCCGGCCTCGAGAAGCCGCCAGAGGCGG
GAAGGGCTGGGAGCTCCCCGTCCTTGTGTGCCGCGGGGGCGGGAAGCAGCTGGCACAGCA
AGTTCTAAAGTGGAAAGCGAGTTGCTGGTGGTAATTTGATCAAATACCGCGGACCAGATG
CCTGGGGCTGCCTGAAAGCCCGCAGCATCCACCAAACACTGGAGTGTCTGCGGGGGGCTC
CCCCTGCCTTCGCCGCCTGTCTTAGTCTTCGTGTCTCCCCTTGGCGTCTCCGGTCTGTCC
CCATCTTGTGCACCATGTGCCCCTGAGGGGAGTCGCACCTGTGTCTGAGTCTGCTGTAAG
GTGTTCAGTCTACCTCAAGGGGTCATCATGGTCAGCTCTGTCCCATAGCAGTCCTGCCGA
CGTCGCCACACACACTGGAATGTATATCTGCCCCGGCCCCGCCTTCCCGTCAGTAACCTC
CTGACCCCGTCTTTTCCTCTGTCACCACCAACTCCTAGTGCAAATTGGATGCTGCTTTAA
ATGTGAAAACAATTGTTCAAAAGCTATAAAACCTGAATGAAAGCTAAAGCTGAATTTATA
AGCCTTGTTGCATATGAGCCAAAAGTGCAAAAAGCTCTATATAATGAACTAACCTGCCAC
TCGTATAAATATAAATATATATAAATATATTAAAATCAGACTGTTCTACAAAATTGTGTA
TTTGTATTTTTGTGTACGTACAATTTTCTGCTAAGCAGAAGGAGGGTGTAGTATAGGGCG
CTGTGAGAAGAGATTTCGTTTAATCCTATTGCTTTGTTACTTATTTTTGTTAACATCAGA
TGCCTGTCTTCGTCTTACGTGTATGACACTGTTTGGAAAGCTGCAGTATCTCTCTTCCTT
AGGGCCAGAGTCCATTGGAGAATGAAATCCGGGGTGGAGAGAGTCGGTCTGGCAGGACTG
AGGGAGAGAGCACGGCCTCTGAGAAGCAAAAATCCCATTTCTAGAAATCAGCTTCCAAAG
AGATTGTCAGCTCTGACGCAGACTCCCCACTGGGTCCGCCGGGAGGGGACGCAGGACCTC
TCTGAAGTGAGGGACAGGGCCTCTTATCTCTTGGCCAGAAGTTTGCCCAGAAAGCAGCAG
GGGGCTGTGCCTGGCCTTCGTGCCCAGCTCACCGGCCATCCCTGGGCTCCCATCCCTCTT
CCAAGTAGTTGCTGCCTTTCTCAGATCAGGTTATAAAACGCCTTCCCTCTGCTGAGCAGC
TGGCGCTTCACCACCCAGAGCTCCAGCCCCAGTTCCCTGGAGGGTCTCAGAACCCACCTT
CCCGGTGCTAACACACAAGAGGGGGTAGCATGGCTGCCAGTCATGGCCAGAAACCAACCA
CCGGACAGGCCGGGCCCAAAGAAAAGCTCCGCGTGCCCGGGACAGTTGGCCCTCCCACCA
CAAAGGCGTCCAGAGGCCCCAGGCCCGGGCCCGCCCCCTGCTGCCCACTCACCTCTCAGC
CCCGTGACAGTCCCTCTTGACGTGAACCTTCTCTAGGGAGAGCGATACTGCACCTTCACC
TGTGGGACTCATATTTATAACAATGTGTAATGACTGTAGCAAAAAGCCCTTGTTTCTCGA
TGTAAATGGTCAAAGAAACAAGTGCTCTATTGTATTGATTAAAATAGTTCAAATGAGTCC
TGTATCATTGTATCTCCTATTCTGGATTAGTGCCTTTTGGACAGTAGACTGTTCTGTAAT
TAAAATGTAGTATACTGCTTTTTTGTACAGTTTTGTTTTAATAAAACTTTTTTTTAATTT
GTGTTTACTTTAGTATTGTACCTATTAGAGAATAAAATGTATAACTGAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCGGGCGTTTGCCAGAGGAACCCAGCTGGGTGGAGAGTGAGCAGGTGGCCGGGACTGCCC
CATGGTGGCCAGTGAGGCTGTTCTGGACGTGCACTTGTCGGCTCCAGTTGTGGTTGAGAC
GAGATGAACGTGAGCGAGGCTGAACCAGGGGAGCCGGCCTCGAGAAGCCGCCAGAGGCGG
GAAGGGCTGGGAGCTCCCCGTCCTTGTGTGCCGCGGGGGCGGGAAGCAGCTGGCACAGCA
AGTTCTAAAGTGGAAAGCGAGTTGCTGGTGGTAATTTGATCAAATACCGCGGACCAGATG
CCTGGGGCTGCCTGAAAGCCCGCAGCATCCACCAAACACTGGAGTGTCTGCGGGGGGCTC
CCCCTGCCTTCGCCGCCTGTCTTAGTCTTCGTGTCTCCCCTTGGCGTCTCCGGTCTGTCC
CCATCTTGTGCACCATGTGCCCCTGAGGGGAGTCGCACCTGTGTCTGAGTCTGCTGTAAG
GTGTTCAGTCTACCTCAAGGGGTCATCATGGTCAGCTCTGTCCCATAGCAGTCCTGCCGA
CGTCGCCACACACACTGGAATGTATATCTGCCCCGGCCCCGCCTTCCCGTCAGTAACCTC
CTGACCCCGTCTTTTCCTCTGTCACCACCAACTCCTAGTGCAAATTGGATGCTGCTTTAA
ATGTGAAAACAATTGTTCAAAAGCTATAAAACCTGAATGAAAGCTAAAGCTGAATTTATA
AGCCTTGTTGCATATGAGCCAAAAGTGCAAAAAGCTCTATATAATGAACTAACCTGCCAC
TCGTATAAATATAAATATATATAAATATATTAAAATCAGACTGTTCTACAAAATTGTGTA
TTTGTATTTTTGTGTACGTACAATTTTCTGCTAAGCAGAAGGAGGGTGTAGTATAGGGCG
CTGTGAGAAGAGATTTCGTTTAATCCTATTGCTTTGTTACTTATTTTTGTTAACATCAGA
TGCCTGTCTTCGTCTTACGTGTATGACACTGTTTGGAAAGCTGCAGTATCTCTCTTCCTT
AGGGCCAGAGTCCATTGGAGAATGAAATCCGGGGTGGAGAGAGTCGGTCTGGCAGGACTG
AGGGAGAGAGCACGGCCTCTGAGAAGCAAAAATCCCATTTCTAGAAATCAGCTTCCAAAG
AGATTGTCAGCTCTGACGCAGACTCCCCACTGGGTCCGCCGGGAGGGGACGCAGGACCTC
TCTGAAGTGAGGGACAGGGCCTCTTATCTCTTGGCCAGAAGTTTGCCCAGAAAGCAGCAG
GGGGCTGTGCCTGGCCTTCGTGCCCAGCTCACCGGCCATCCCTGGGCTCCCATCCCTCTT
CCAAGTAGTTGCTGCCTTTCTCAGATCAGGTTATAAAACGCCTTCCCTCTGCTGAGCAGC
TGGCGCTTCACCACCCAGAGCTCCAGCCCCAGTTCCCTGGAGGGTCTCAGAACCCACCTT
CCCGGTGCTAACACACAAGAGGGGGTAGCATGGCTGCCAGTCATGGCCAGAAACCAACCA
CCGGACAGGCCGGGCCCAAAGAAAAGCTCCGCGTGCCCGGGACAGTTGGCCCTCCCACCA
CAAAGGCGTCCAGAGGCCCCAGGCCCGGGCCCGCCCCCTGCTGCCCACTCACCTCTCAGC
CCCGTGACAGTCCCTCTTGACGTGAACCTTCTCTAGGGAGAGCGATACTGCACCTTCACC
TGTGGGACTCATATTTATAACAATGTGTAATGACTGTAGCAAAAAGCCCTTGTTTCTCGA
TGTAAATGGTCAAAGAAACAAGTGCTCTATTGTATTGATTAAAATAGTTCAAATGAGTCC
TGTATCATTGTATCTCCTATTCTGGATTAGTGCCTTTTGGACAGTAGACTGTTCTGTAAT
TAAAATGTAGTATACTGCTTTTTTGTACAGTTTTGTTTTAATAAAACTTTTTTTTAATTT
GTGTTTACTTTAGTATTGTACCTATTAGAGAATAAAATGTATAACTGAAAAAAAAAAAAA

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

More info

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

Help | Less info


               
               793-911, - strand, RNAz p=0.949306
               

               
               822-941, - strand, RNAz p=0.547656
               

               
               1682-1801, + strand, RNAz p=0.984077

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


               
               793-911, - strand, RNAz p=0.949306
               

               
               822-941, - strand, RNAz p=0.547656
               

               
               1682-1801, + strand, RNAz p=0.984077

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               1685-1801, UI-CF-EC1-aci-j-03-0-UI.s1 UI-CF-EC1 Homo sapiens cDNA clone 
(gb|BU682805.1|), blast E-value=0, identity=95.73% 
               

               
               1685-1801, UI-H-FE0-bbp-e-07-0-UI.s1 NCI_CGAP_FE0 Homo sapiens cDNA clone 
(gb|CA416498.1|), blast E-value=0, identity=95.73% 
               

               
               1685-1801, UI-H-DF0-beu-o-21-0-UI.s1 NCI_CGAP_DF0 Homo sapiens cDNA clone 
(gb|CA431816.1|), blast E-value=0, identity=95.73% 
               

               
               1682-1801, LeukoS3_8_F06.b1_A025 Stimulated peripheral blood leukocytes S3 
(gb|CD468912.1|), blast E-value=0, identity=96.67% 
               

               
               1682-1801, GL-Cf-5813 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN749021.1|), blast E-value=0, identity=98.33% 
               

               
               1685-1801, nbc09h08.x1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus 
(gb|EB373889.1|), blast E-value=0, identity=96.58%

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


               
               1685-1801, UI-CF-EC1-aci-j-03-0-UI.s1 UI-CF-EC1 Homo sapiens cDNA clone 
(gb|BU682805.1|), blast E-value=0, identity=95.73% 
               

               
               1685-1801, UI-H-FE0-bbp-e-07-0-UI.s1 NCI_CGAP_FE0 Homo sapiens cDNA clone 
(gb|CA416498.1|), blast E-value=0, identity=95.73% 
               

               
               1685-1801, UI-H-DF0-beu-o-21-0-UI.s1 NCI_CGAP_DF0 Homo sapiens cDNA clone 
(gb|CA431816.1|), blast E-value=0, identity=95.73% 
               

               
               1682-1801, LeukoS3_8_F06.b1_A025 Stimulated peripheral blood leukocytes S3 
(gb|CD468912.1|), blast E-value=0, identity=96.67% 
               

               
               1682-1801, GL-Cf-5813 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN749021.1|), blast E-value=0, identity=98.33% 
               

               
               1685-1801, nbc09h08.x1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus 
(gb|EB373889.1|), blast E-value=0, identity=96.58%

Aligned organism(s): 18 entry(ies)

More info

Aligned organism(s): 18 entry(ies)

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               360-1072, gnl|bosTau2|chr18 (6148121-6148845)
               

               
               360-1072, gnl|canFam2|chr25 (31480064-31478747)
               

               
               360-1072, gnl|dasNov1|scaffold_135433 (1134-44)
               

               
               360-1072, gnl|echTel1|scaffold_311739 (4595-5625)
               

               
               360-1072, gnl|galGal2|chr3 (104157327-104158626)
               

               
               360-1072, gnl|hg17|chr8 (28975793-28977132)
               

               
               360-1072, gnl|Hg17|chr8 (28976674-28977386)
               

               
               360-1072, gnl|loxAfr1|scaffold_17102 (28736-27384)
               

               
               360-1072, gnl|mm7|chr14 (59675093-59673932)
               

               
               360-1072, gnl|Mm7|chr14 (59674381-59673695)
               

               
               360-1072, gnl|monDom2|scaffold_1 (69240231-69241563)
               

               
               360-1072, gnl|oryCun1|scaffold_167532 (28710-27392)
               

               
               360-1072, gnl|panTro1|chr7 (30036052-30037383)
               

               
               360-1072, gnl|rheMac2|chr8 (29221168-29222497)
               

               
               360-1072, gnl|rn3|chr15 (44190058-44188917)
               


               
               1299-1973, gnl|bosTau2|chr18 (6149035-6149693)
               

               
               1299-1973, gnl|Hg17|chr8 (28977728-28978379)
               

               
               1299-1973, gnl|Mm7|chr14 (59673507-59672919)

Aligned organism(s): 18 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


               
               360-1072, gnl|bosTau2|chr18 (6148121-6148845)
               

               
               360-1072, gnl|canFam2|chr25 (31480064-31478747)
               

               
               360-1072, gnl|dasNov1|scaffold_135433 (1134-44)
               

               
               360-1072, gnl|echTel1|scaffold_311739 (4595-5625)
               

               
               360-1072, gnl|galGal2|chr3 (104157327-104158626)
               

               
               360-1072, gnl|hg17|chr8 (28975793-28977132)
               

               
               360-1072, gnl|Hg17|chr8 (28976674-28977386)
               

               
               360-1072, gnl|loxAfr1|scaffold_17102 (28736-27384)
               

               
               360-1072, gnl|mm7|chr14 (59675093-59673932)
               

               
               360-1072, gnl|Mm7|chr14 (59674381-59673695)
               

               
               360-1072, gnl|monDom2|scaffold_1 (69240231-69241563)
               

               
               360-1072, gnl|oryCun1|scaffold_167532 (28710-27392)
               

               
               360-1072, gnl|panTro1|chr7 (30036052-30037383)
               

               
               360-1072, gnl|rheMac2|chr8 (29221168-29222497)
               

               
               360-1072, gnl|rn3|chr15 (44190058-44188917)
               


               
               1299-1973, gnl|bosTau2|chr18 (6149035-6149693)
               

               
               1299-1973, gnl|Hg17|chr8 (28977728-28978379)
               

               
               1299-1973, gnl|Mm7|chr14 (59673507-59672919)

Expressed library(ies): 14 entry(ies)

More info

Expressed library(ies): 14 entry(ies)

Help | Less info


               
               cje (0.330469)
               

               
               ese (0.253004)
               

               
               ece (0.229305)
               

               
               ill (0.175593)
               

               
               fbs (0.175346)
               

               
               cut (0.169924)
               

               
               fhi (0.169578)
               

               
               cki (0.165235)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               cst (0.140036)
               

               
               clu (0.119646)
               

               
               spc (0.113366)
               

               
               eje (0.0988338)

Expressed library(ies): 14 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


               
               cje (0.330469)
               

               
               ese (0.253004)
               

               
               ece (0.229305)
               

               
               ill (0.175593)
               

               
               fbs (0.175346)
               

               
               cut (0.169924)
               

               
               fhi (0.169578)
               

               
               cki (0.165235)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               cst (0.140036)
               

               
               clu (0.119646)
               

               
               spc (0.113366)
               

               
               eje (0.0988338)

	793-911, - strand, RNAz p=0.949306
	822-941, - strand, RNAz p=0.547656
	1682-1801, + strand, RNAz p=0.984077

	1685-1801, UI-CF-EC1-aci-j-03-0-UI.s1 UI-CF-EC1 Homo sapiens cDNA clone (gb\|BU682805.1\|), blast E-value=0, identity=95.73%
	1685-1801, UI-H-FE0-bbp-e-07-0-UI.s1 NCI_CGAP_FE0 Homo sapiens cDNA clone (gb\|CA416498.1\|), blast E-value=0, identity=95.73%
	1685-1801, UI-H-DF0-beu-o-21-0-UI.s1 NCI_CGAP_DF0 Homo sapiens cDNA clone (gb\|CA431816.1\|), blast E-value=0, identity=95.73%
	1682-1801, LeukoS3_8_F06.b1_A025 Stimulated peripheral blood leukocytes S3 (gb\|CD468912.1\|), blast E-value=0, identity=96.67%
	1682-1801, GL-Cf-5813 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN749021.1\|), blast E-value=0, identity=98.33%
	1685-1801, nbc09h08.x1 Rabbit trigeminal nerve. Unnormalized (nbc) Oryctolagus (gb\|EB373889.1\|), blast E-value=0, identity=96.58%

	360-1072, gnl\|bosTau2\|chr18 (6148121-6148845)
	360-1072, gnl\|canFam2\|chr25 (31480064-31478747)
	360-1072, gnl\|dasNov1\|scaffold_135433 (1134-44)
	360-1072, gnl\|echTel1\|scaffold_311739 (4595-5625)
	360-1072, gnl\|galGal2\|chr3 (104157327-104158626)
	360-1072, gnl\|hg17\|chr8 (28975793-28977132)
	360-1072, gnl\|Hg17\|chr8 (28976674-28977386)
	360-1072, gnl\|loxAfr1\|scaffold_17102 (28736-27384)
	360-1072, gnl\|mm7\|chr14 (59675093-59673932)
	360-1072, gnl\|Mm7\|chr14 (59674381-59673695)
	360-1072, gnl\|monDom2\|scaffold_1 (69240231-69241563)
	360-1072, gnl\|oryCun1\|scaffold_167532 (28710-27392)
	360-1072, gnl\|panTro1\|chr7 (30036052-30037383)
	360-1072, gnl\|rheMac2\|chr8 (29221168-29222497)
	360-1072, gnl\|rn3\|chr15 (44190058-44188917)

	1299-1973, gnl\|bosTau2\|chr18 (6149035-6149693)
	1299-1973, gnl\|Hg17\|chr8 (28977728-28978379)
	1299-1973, gnl\|Mm7\|chr14 (59673507-59672919)

	cje (0.330469)
	ese (0.253004)
	ece (0.229305)
	ill (0.175593)
	fbs (0.175346)
	cut (0.169924)
	fhi (0.169578)
	cki (0.165235)
	pty (0.142714)
	csk (0.140746)
	cst (0.140036)
	clu (0.119646)
	spc (0.113366)
	eje (0.0988338)