Non-Coding RNA Search

Ss1.1-Pig4-TMW8024N15.3

Sequence:


               
               GTTAAGAGAAAAGTAAATATCTCCTAATGCTAGTTTTTTAGTTGTTTTATGTTGCAGAAT
TGCAAAAACAAAAACAAAACCATTTTATTTCAATGTTATTGGAAAGTTTTTTTTATTAGG
AAGTAAATGTATTGTCACAGTGTTGTTGTGTGCCTGTTGAAAGGCTTTTGTTTAGCAGAG
TGAATGTAAAATACAGTAAAATGTTAAGATTGTCATCCACTTTATGAAATATACCACTTG
GGTTTTTGGGTTTTTTTTTTGTTTTTTTGGTTTTTTTTTTTTAAGGTTTTTATCAAGGAA
GTGAGGTGTGCAATAGGTGGCAAGGACACGGTGGTGTTTTGATGTCATACTAGAGATTCC
ATCACATCTTTCCACTCACTGAATTTTTGCTGATGGCTGGATTCTTATTGTGGATTAATA
ATAGGATCCTGCCCTTAGCAAGTGTTTTAGTTTTGTTTTACATTTTAAATTAAGAGATTC
CCACATGCCCTCTTTCCCCTCATCTTAGGGTGGGATGAATTTTTTTATATATAAGCAATA
TTTATTTAACTAGTCTATAAAATTATTGAGTGCCTGTAAAGGCCTTTAAACATTCCTAAC
GTTCCTCTCCATCGTTCTTAAATGACATAAAGTAATTGTGCAATGTTCCCAATAGTGAAC
CCTACAAGCTGCATCCAAACTCCAGCCTGCTGTAAATGAATAATCCGACACAATGCAATT
AGGATGAGATCCCCATTCCTTGACTTTGTGTGAAAGAAGGGCTCTCCAGTGAAGGATTTA
TTATCACAGAGTTTCACTGGATGAGACTCTGACCCAGGGGTCTTACTGTATTTTACATGT
GCCTGTCAATTATTTGCAAAAAAAGAAAAAAAAAAAACAAAAAACATGGTGTCTTAACAT
GCTAACTACCAAACTACCTTAAAAACAAATATTGGTGACATAGCCAATTAAGTATCAATG
AGCCTCCTACCTATGGTCTGTCTGTCCTTGTTTCAAAACCATTTCATATAAATACACTAC
TGAGGTAAGTTTATAACTTGAAATGTGAACTTTTTTTTTTTAGGGTTAAGAACAAACTAT
AAATGTAAAAAAAAAAAAAAGCTTTCAAGTTTCTCTGTTTTCAAACGTGCTAGCAATTTA
GTTATCTTTAGTTGCTTTGTATTTGAAAAGCTTTAAAGTTTATTTGGATCTTGCTTCATT
TACAGTACATTCTTAGGATGTGTGTAGTAAATAAAGCTTTCTTTAAAG

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTTAAGAGAAAAGTAAATATCTCCTAATGCTAGTTTTTTAGTTGTTTTATGTTGCAGAAT
TGCAAAAACAAAAACAAAACCATTTTATTTCAATGTTATTGGAAAGTTTTTTTTATTAGG
AAGTAAATGTATTGTCACAGTGTTGTTGTGTGCCTGTTGAAAGGCTTTTGTTTAGCAGAG
TGAATGTAAAATACAGTAAAATGTTAAGATTGTCATCCACTTTATGAAATATACCACTTG
GGTTTTTGGGTTTTTTTTTTGTTTTTTTGGTTTTTTTTTTTTAAGGTTTTTATCAAGGAA
GTGAGGTGTGCAATAGGTGGCAAGGACACGGTGGTGTTTTGATGTCATACTAGAGATTCC
ATCACATCTTTCCACTCACTGAATTTTTGCTGATGGCTGGATTCTTATTGTGGATTAATA
ATAGGATCCTGCCCTTAGCAAGTGTTTTAGTTTTGTTTTACATTTTAAATTAAGAGATTC
CCACATGCCCTCTTTCCCCTCATCTTAGGGTGGGATGAATTTTTTTATATATAAGCAATA
TTTATTTAACTAGTCTATAAAATTATTGAGTGCCTGTAAAGGCCTTTAAACATTCCTAAC
GTTCCTCTCCATCGTTCTTAAATGACATAAAGTAATTGTGCAATGTTCCCAATAGTGAAC
CCTACAAGCTGCATCCAAACTCCAGCCTGCTGTAAATGAATAATCCGACACAATGCAATT
AGGATGAGATCCCCATTCCTTGACTTTGTGTGAAAGAAGGGCTCTCCAGTGAAGGATTTA
TTATCACAGAGTTTCACTGGATGAGACTCTGACCCAGGGGTCTTACTGTATTTTACATGT
GCCTGTCAATTATTTGCAAAAAAAGAAAAAAAAAAAACAAAAAACATGGTGTCTTAACAT
GCTAACTACCAAACTACCTTAAAAACAAATATTGGTGACATAGCCAATTAAGTATCAATG
AGCCTCCTACCTATGGTCTGTCTGTCCTTGTTTCAAAACCATTTCATATAAATACACTAC
TGAGGTAAGTTTATAACTTGAAATGTGAACTTTTTTTTTTTAGGGTTAAGAACAAACTAT
AAATGTAAAAAAAAAAAAAAGCTTTCAAGTTTCTCTGTTTTCAAACGTGCTAGCAATTTA
GTTATCTTTAGTTGCTTTGTATTTGAAAAGCTTTAAAGTTTATTTGGATCTTGCTTCATT
TACAGTACATTCTTAGGATGTGTGTAGTAAATAAAGCTTTCTTTAAAG

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

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

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               106-221, + strand, RNAz p=0.65823
               

               
               723-830, - strand, RNAz p=0.627855
               

               
               1127-1246, + strand, RNAz p=0.998673

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


               
               106-221, + strand, RNAz p=0.65823
               

               
               723-830, - strand, RNAz p=0.627855
               

               
               1127-1246, + strand, RNAz p=0.998673

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

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               1141-1243, AJ678868 KN224 Bos taurus cDNA clone KN224-027_J08, mRNA sequence 
(emb|AJ678868.1|), blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, AM020682 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007420k06 
(emb|AM020682.1|), blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, 1251177 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN514126.1|), 
blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, 1360019 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN532023.1|), 
blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, 1361555 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN533417.1|), 
blast E-value=6e-31, identity=93.2% 
               

               
               1130-1244, nad39f07.y1 Dog eye cornea. Unnormalized (nad) Canis familiaris 
(gb|DN875445.1|), blast E-value=6e-31, identity=91.3%

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


               
               1141-1243, AJ678868 KN224 Bos taurus cDNA clone KN224-027_J08, mRNA sequence 
(emb|AJ678868.1|), blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, AM020682 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007420k06 
(emb|AM020682.1|), blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, 1251177 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN514126.1|), 
blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, 1360019 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN532023.1|), 
blast E-value=6e-31, identity=93.2% 
               

               
               1141-1243, 1361555 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN533417.1|), 
blast E-value=6e-31, identity=93.2% 
               

               
               1130-1244, nad39f07.y1 Dog eye cornea. Unnormalized (nad) Canis familiaris 
(gb|DN875445.1|), blast E-value=6e-31, identity=91.3%

Homologous human UTR: 2 entry(ies)

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Homologous human UTR: 2 entry(ies)

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               5' of NM_019027, +
               

               
               5' of NM_019027, +

Homologous human UTR: 2 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               5' of NM_019027, +
               

               
               5' of NM_019027, +

Aligned organism(s): 18 entry(ies)

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Aligned organism(s): 18 entry(ies)

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               13-247, gnl|bosTau2|chr6 (31241052-31240808)
               

               
               13-247, gnl|canFam2|chr3 (74960950-74960388)
               

               
               13-247, gnl|dasNov1|scaffold_1962 (1601-2173)
               

               
               13-247, gnl|echTel1|scaffold_288387 (3470-4020)
               

               
               13-247, gnl|galGal2|chr4 (69412723-69412111)
               

               
               13-247, gnl|hg17|chr4 (40267083-40267655)
               

               
               13-247, gnl|Hg17|chr4 (40267513-40267266)
               

               
               13-247, gnl|loxAfr1|scaffold_399 (1197-618)
               

               
               13-247, gnl|mm7|chr5 (65372124-65372703)
               

               
               13-247, gnl|Mm7|chr5 (65372559-65372306)
               

               
               13-247, gnl|monDom2|scaffold_26 (5677503-5678089)
               

               
               13-247, gnl|oryCun1|scaffold_190032 (116655-116122)
               

               
               13-247, gnl|panTro1|chr3 (42944493-42945066)
               

               
               13-247, gnl|rheMac2|chr5 (35453910-35454475)
               

               
               13-247, gnl|rn3|chr14 (44849999-44849444)
               


               
               267-1246, gnl|bosTau2|chr6 (31240817-31239820)
               

               
               267-1246, gnl|Hg17|chr4 (40267275-40266229)
               

               
               267-1246, gnl|Mm7|chr5 (65372314-65371370)

Aligned organism(s): 18 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


               
               13-247, gnl|bosTau2|chr6 (31241052-31240808)
               

               
               13-247, gnl|canFam2|chr3 (74960950-74960388)
               

               
               13-247, gnl|dasNov1|scaffold_1962 (1601-2173)
               

               
               13-247, gnl|echTel1|scaffold_288387 (3470-4020)
               

               
               13-247, gnl|galGal2|chr4 (69412723-69412111)
               

               
               13-247, gnl|hg17|chr4 (40267083-40267655)
               

               
               13-247, gnl|Hg17|chr4 (40267513-40267266)
               

               
               13-247, gnl|loxAfr1|scaffold_399 (1197-618)
               

               
               13-247, gnl|mm7|chr5 (65372124-65372703)
               

               
               13-247, gnl|Mm7|chr5 (65372559-65372306)
               

               
               13-247, gnl|monDom2|scaffold_26 (5677503-5678089)
               

               
               13-247, gnl|oryCun1|scaffold_190032 (116655-116122)
               

               
               13-247, gnl|panTro1|chr3 (42944493-42945066)
               

               
               13-247, gnl|rheMac2|chr5 (35453910-35454475)
               

               
               13-247, gnl|rn3|chr14 (44849999-44849444)
               


               
               267-1246, gnl|bosTau2|chr6 (31240817-31239820)
               

               
               267-1246, gnl|Hg17|chr4 (40267275-40266229)
               

               
               267-1246, gnl|Mm7|chr5 (65372314-65371370)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               kid (0.389206)
               

               
               lin (0.291206)
               

               
               lyg (0.266205)
               

               
               lun (0.150489)
               

               
               tra (0.123092)
               

               
               eru (0.120048)

Expressed library(ies): 6 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


               
               kid (0.389206)
               

               
               lin (0.291206)
               

               
               lyg (0.266205)
               

               
               lun (0.150489)
               

               
               tra (0.123092)
               

               
               eru (0.120048)

	106-221, + strand, RNAz p=0.65823
	723-830, - strand, RNAz p=0.627855
	1127-1246, + strand, RNAz p=0.998673

	1141-1243, AJ678868 KN224 Bos taurus cDNA clone KN224-027_J08, mRNA sequence (emb\|AJ678868.1\|), blast E-value=6e-31, identity=93.2%
	1141-1243, AM020682 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007420k06 (emb\|AM020682.1\|), blast E-value=6e-31, identity=93.2%
	1141-1243, 1251177 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN514126.1\|), blast E-value=6e-31, identity=93.2%
	1141-1243, 1360019 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN532023.1\|), blast E-value=6e-31, identity=93.2%
	1141-1243, 1361555 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN533417.1\|), blast E-value=6e-31, identity=93.2%
	1130-1244, nad39f07.y1 Dog eye cornea. Unnormalized (nad) Canis familiaris (gb\|DN875445.1\|), blast E-value=6e-31, identity=91.3%

	13-247, gnl\|bosTau2\|chr6 (31241052-31240808)
	13-247, gnl\|canFam2\|chr3 (74960950-74960388)
	13-247, gnl\|dasNov1\|scaffold_1962 (1601-2173)
	13-247, gnl\|echTel1\|scaffold_288387 (3470-4020)
	13-247, gnl\|galGal2\|chr4 (69412723-69412111)
	13-247, gnl\|hg17\|chr4 (40267083-40267655)
	13-247, gnl\|Hg17\|chr4 (40267513-40267266)
	13-247, gnl\|loxAfr1\|scaffold_399 (1197-618)
	13-247, gnl\|mm7\|chr5 (65372124-65372703)
	13-247, gnl\|Mm7\|chr5 (65372559-65372306)
	13-247, gnl\|monDom2\|scaffold_26 (5677503-5678089)
	13-247, gnl\|oryCun1\|scaffold_190032 (116655-116122)
	13-247, gnl\|panTro1\|chr3 (42944493-42945066)
	13-247, gnl\|rheMac2\|chr5 (35453910-35454475)
	13-247, gnl\|rn3\|chr14 (44849999-44849444)

	267-1246, gnl\|bosTau2\|chr6 (31240817-31239820)
	267-1246, gnl\|Hg17\|chr4 (40267275-40266229)
	267-1246, gnl\|Mm7\|chr5 (65372314-65371370)

	kid (0.389206)
	lin (0.291206)
	lyg (0.266205)
	lun (0.150489)
	tra (0.123092)
	eru (0.120048)