Non-Coding RNA Search

Ss1.1-Lym1-jns67_H09.f.5

Sequence:


               
               TTCTTCCACAGTTCGGCAAACAAGTGCTAGCTTCACTGACCAAAAATTAAGGAAGGAAAA
TCCGATTTTTAAAACGATCCATCTTTTAACGGCCGAAACCAATGTGTCTATGGTGCTGCA
TTTTGCTGTCTGTCCTACTTTTGAAATCAGACCTGGGTGAAAGATCACTTCTGACTTAAC
TGTGATAATGCTCACAAGTACCCTTGTTCGTTTTGTTAGTGTTGAAATCAAGACTATTTA
TTTGGAATATCTATAACAGTGTTTTCCACTGTGTTTCATTTGCAAAAGTTGAGAACAGCC
TTCCCTACTTTTTGCAAAGAATTAATATTCCATATTGGATTCGCGAAGACTTCGATATGG
GGAAATCTATCCAACCTAGCAATTGTCTTTCATCCTTTCATGACTGTGGCCTGAGTTCCC
AACCCCTCCCTTTTTTCGATGAGACTCTTAGCACCATTTCAGTTATTTAAGCATCTTCAG
CCTTTCTTGCGTATGTATGTTGAGCCGTCGGCGCTCACAGCTGATTCAGTAACCAGTTTC
CTGCTGTCATTCACCCTCGCTACTTATACTGCCATGGTGACGATGTGGAGGAAACGAGTG
TCTGTGTGTCTCTGGGAAGCATTATACACTTGTTCATTTTTTATACGCTGATGCTGTAAC
ATTTCTGAGTTCTGTTTGTGTTTTACAGAAAGCGAAATAACAGTGATAAAGCAATCAGAA
GACAAGAGGTTTACTGTCATCCTTAGGGTCGTCTGACCTCTGGCCAATAGACCGACATGG
CCAAATTCATTTACGAGAGTAATAAGTTTTCAAAAGCCAATTTTTTTTTTTCTTTCTGTA
TGAAACTGCCAATATCATGACTAGAAAGGGAGACCCATAGAGGAGAAAGGAAAGTGATGC
TCAGTTGCATTTGTGTTACTAACGGAGCAGTGTGGACGCAGGCACGATCAGCCGAACTCT
AGGGACCTGATGGTGTTGCTTTGGAGGCATCCATACTTGCATTTCACATTCTTCATATGT
AATCATATTGCCAAAGACAAACTATTTCATCATTTATTGTAAATAACACTTTTCCCCAGA
CCTACCATAAAGTTTCTGTGATGTATTGTCTTCCAGTTGCAATAAAAATTACTGAGTTGC
ATCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTCTTCCACAGTTCGGCAAACAAGTGCTAGCTTCACTGACCAAAAATTAAGGAAGGAAAA
TCCGATTTTTAAAACGATCCATCTTTTAACGGCCGAAACCAATGTGTCTATGGTGCTGCA
TTTTGCTGTCTGTCCTACTTTTGAAATCAGACCTGGGTGAAAGATCACTTCTGACTTAAC
TGTGATAATGCTCACAAGTACCCTTGTTCGTTTTGTTAGTGTTGAAATCAAGACTATTTA
TTTGGAATATCTATAACAGTGTTTTCCACTGTGTTTCATTTGCAAAAGTTGAGAACAGCC
TTCCCTACTTTTTGCAAAGAATTAATATTCCATATTGGATTCGCGAAGACTTCGATATGG
GGAAATCTATCCAACCTAGCAATTGTCTTTCATCCTTTCATGACTGTGGCCTGAGTTCCC
AACCCCTCCCTTTTTTCGATGAGACTCTTAGCACCATTTCAGTTATTTAAGCATCTTCAG
CCTTTCTTGCGTATGTATGTTGAGCCGTCGGCGCTCACAGCTGATTCAGTAACCAGTTTC
CTGCTGTCATTCACCCTCGCTACTTATACTGCCATGGTGACGATGTGGAGGAAACGAGTG
TCTGTGTGTCTCTGGGAAGCATTATACACTTGTTCATTTTTTATACGCTGATGCTGTAAC
ATTTCTGAGTTCTGTTTGTGTTTTACAGAAAGCGAAATAACAGTGATAAAGCAATCAGAA
GACAAGAGGTTTACTGTCATCCTTAGGGTCGTCTGACCTCTGGCCAATAGACCGACATGG
CCAAATTCATTTACGAGAGTAATAAGTTTTCAAAAGCCAATTTTTTTTTTTCTTTCTGTA
TGAAACTGCCAATATCATGACTAGAAAGGGAGACCCATAGAGGAGAAAGGAAAGTGATGC
TCAGTTGCATTTGTGTTACTAACGGAGCAGTGTGGACGCAGGCACGATCAGCCGAACTCT
AGGGACCTGATGGTGTTGCTTTGGAGGCATCCATACTTGCATTTCACATTCTTCATATGT
AATCATATTGCCAAAGACAAACTATTTCATCATTTATTGTAAATAACACTTTTCCCCAGA
CCTACCATAAAGTTTCTGTGATGTATTGTCTTCCAGTTGCAATAAAAATTACTGAGTTGC
ATCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 1 entry(ies)

More info

Predicted RNA structure(s): 1 entry(ies)

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               233-388, - strand, RNAz p=0.993708

Predicted RNA structure(s): 1 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


               
               233-388, - strand, RNAz p=0.993708

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               233-360, DA898133 SKMUS2 Homo sapiens cDNA clone SKMUS2006323 5', mRNA 
(dbj|DA898133.1|), blast E-value=3e-30, identity=90% 
               

               
               233-360, BX117138 Soares retina N2b4HR Homo sapiens cDNA clone 
(emb|BX117138.1|), blast E-value=3e-30, identity=90% 
               

               
               233-360, AGENCOURT_11469096 NICHD_Rh_Ov1 Macaca mulatta cDNA clone 
(gb|CB231095.1|), blast E-value=3e-30, identity=90% 
               

               
               233-360, AGENCOURT_14367144 NIH_MGC_181 Homo sapiens cDNA clone 
(gb|CD516008.1|), blast E-value=3e-30, identity=90% 
               

               
               233-342, LeukoN5_1_F08.g1_A027 Unstimulated peripheral blood leukocytes N5 
(gb|CD535222.1|), blast E-value=1e-32, identity=91.82% 
               

               
               233-360, ILLUMIGEN_MCQ_47720 Katze_MMTE Macaca mulatta cDNA clone 
(gb|CO581121.1|), blast E-value=3e-30, identity=90%

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


               
               233-360, DA898133 SKMUS2 Homo sapiens cDNA clone SKMUS2006323 5', mRNA 
(dbj|DA898133.1|), blast E-value=3e-30, identity=90% 
               

               
               233-360, BX117138 Soares retina N2b4HR Homo sapiens cDNA clone 
(emb|BX117138.1|), blast E-value=3e-30, identity=90% 
               

               
               233-360, AGENCOURT_11469096 NICHD_Rh_Ov1 Macaca mulatta cDNA clone 
(gb|CB231095.1|), blast E-value=3e-30, identity=90% 
               

               
               233-360, AGENCOURT_14367144 NIH_MGC_181 Homo sapiens cDNA clone 
(gb|CD516008.1|), blast E-value=3e-30, identity=90% 
               

               
               233-342, LeukoN5_1_F08.g1_A027 Unstimulated peripheral blood leukocytes N5 
(gb|CD535222.1|), blast E-value=1e-32, identity=91.82% 
               

               
               233-360, ILLUMIGEN_MCQ_47720 Katze_MMTE Macaca mulatta cDNA clone 
(gb|CO581121.1|), blast E-value=3e-30, identity=90%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-1154, gnl|bosTau2|chr10 (68414610-68413473)
               

               
               1-1154, gnl|Hg17|chr14 (88693436-88692275)
               

               
               1-1154, gnl|Mm7|chr12 (96686089-96684967)

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


               
               1-1154, gnl|bosTau2|chr10 (68414610-68413473)
               

               
               1-1154, gnl|Hg17|chr14 (88693436-88692275)
               

               
               1-1154, gnl|Mm7|chr12 (96686089-96684967)

Expressed library(ies): 36 entry(ies)

More info

Expressed library(ies): 36 entry(ies)

Help | Less info


               
               cbe (1.19617)
               

               
               gul (0.887942)
               

               
               aor (0.781097)
               

               
               sto (0.719295)
               

               
               sag (0.548145)
               

               
               pro (0.512033)
               

               
               isp (0.451128)
               

               
               fat (0.442282)
               

               
               thg (0.380373)
               

               
               bla (0.373042)
               

               
               cmu (0.372787)
               

               
               vin (0.332557)
               

               
               ski (0.29347)
               

               
               lyg (0.266205)
               

               
               ova (0.258264)
               

               
               eru (0.240096)
               

               
               mgp (0.230681)
               

               
               tes (0.207814)
               

               
               fty (0.17584)
               

               
               duo (0.172801)
               

               
               csp (0.161186)
               

               
               tbr (0.154178)
               

               
               lun (0.150489)
               

               
               liv (0.146284)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               ssp (0.13552)
               

               
               ste (0.135208)
               

               
               pla (0.133672)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               jej (0.0989218)
               

               
               ldo (0.0970026)

Expressed library(ies): 36 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


               
               cbe (1.19617)
               

               
               gul (0.887942)
               

               
               aor (0.781097)
               

               
               sto (0.719295)
               

               
               sag (0.548145)
               

               
               pro (0.512033)
               

               
               isp (0.451128)
               

               
               fat (0.442282)
               

               
               thg (0.380373)
               

               
               bla (0.373042)
               

               
               cmu (0.372787)
               

               
               vin (0.332557)
               

               
               ski (0.29347)
               

               
               lyg (0.266205)
               

               
               ova (0.258264)
               

               
               eru (0.240096)
               

               
               mgp (0.230681)
               

               
               tes (0.207814)
               

               
               fty (0.17584)
               

               
               duo (0.172801)
               

               
               csp (0.161186)
               

               
               tbr (0.154178)
               

               
               lun (0.150489)
               

               
               liv (0.146284)
               

               
               pty (0.142714)
               

               
               csk (0.140746)
               

               
               ssp (0.13552)
               

               
               ste (0.135208)
               

               
               pla (0.133672)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               jca (0.11396)
               

               
               spc (0.113366)
               

               
               cty (0.10408)
               

               
               jej (0.0989218)
               

               
               ldo (0.0970026)

	233-360, DA898133 SKMUS2 Homo sapiens cDNA clone SKMUS2006323 5', mRNA (dbj\|DA898133.1\|), blast E-value=3e-30, identity=90%
	233-360, BX117138 Soares retina N2b4HR Homo sapiens cDNA clone (emb\|BX117138.1\|), blast E-value=3e-30, identity=90%
	233-360, AGENCOURT_11469096 NICHD_Rh_Ov1 Macaca mulatta cDNA clone (gb\|CB231095.1\|), blast E-value=3e-30, identity=90%
	233-360, AGENCOURT_14367144 NIH_MGC_181 Homo sapiens cDNA clone (gb\|CD516008.1\|), blast E-value=3e-30, identity=90%
	233-342, LeukoN5_1_F08.g1_A027 Unstimulated peripheral blood leukocytes N5 (gb\|CD535222.1\|), blast E-value=1e-32, identity=91.82%
	233-360, ILLUMIGEN_MCQ_47720 Katze_MMTE Macaca mulatta cDNA clone (gb\|CO581121.1\|), blast E-value=3e-30, identity=90%

	1-1154, gnl\|bosTau2\|chr10 (68414610-68413473)
	1-1154, gnl\|Hg17\|chr14 (88693436-88692275)
	1-1154, gnl\|Mm7\|chr12 (96686089-96684967)

	cbe (1.19617)
	gul (0.887942)
	aor (0.781097)
	sto (0.719295)
	sag (0.548145)
	pro (0.512033)
	isp (0.451128)
	fat (0.442282)
	thg (0.380373)
	bla (0.373042)
	cmu (0.372787)
	vin (0.332557)
	ski (0.29347)
	lyg (0.266205)
	ova (0.258264)
	eru (0.240096)
	mgp (0.230681)
	tes (0.207814)
	fty (0.17584)
	duo (0.172801)
	csp (0.161186)
	tbr (0.154178)
	lun (0.150489)
	liv (0.146284)
	pty (0.142714)
	csk (0.140746)
	ssp (0.13552)
	ste (0.135208)
	pla (0.133672)
	med (0.116252)
	ecc (0.115035)
	jca (0.11396)
	spc (0.113366)
	cty (0.10408)
	jej (0.0989218)
	ldo (0.0970026)