Non-Coding RNA Search

Ss1.1-Pig4-TMW8067D08.3

Sequence:


               
               TTGGTCGCGGTCTCATCTGGCTCCGTTTCTTGCACCCCCAGAGCGTGCATTACCACTTCA
GTGTATTGCCACAAGAGTGAAACCACAGTGATGCAAGGCAGTGTAGACGAACAGTAGAGG
AGAAATTGTGCCCTTAGTGTTGACAATGTGCCTTTTGTTCTGAACGCCATGTTGTAGGGC
TTGCATTTTTTGACCTCTTTAACTCTTTGAATACTAGACAGTAAGGCCGGAACCCACCTC
TGCAAAGATCCATCTATCTGTCTTAAACATCCAGTTACTCACAGGCCTTAATAGAAACCA
TAAGGCGTGAATCATCGTCAGGCACGGAGAAAGGTAACCACTGGTTAGTTACACAGGGAC
TTCTTAGGTGTAAGGGGTTAAAGATGGTCTCTGTTGTATCTTAACATCAGACTGATTTTT
TAAATGATATATTTTTTGTTGTTGTTGTTAGGCGAATGACACTAGACAAAAATCAACTGT
ATTTGTAAAAATTTACCTCAGACCATTTAATTTTATAGTGTGATTAATCCCAGGGCATTT
GGTATGAACCAAAGTGCATTCCTTTTCTATGTGCCTGGCTCTAGTAAGGATGGCCAGGGA
TTTTTACTATTTGGGTGCAAGGCACTTAAGCCACTTTTAAACTTAATGGGTGGTTTGGAG
TCATGTGGAAGGACTCCATCAGAATGTTAGGAGACACTTTAGGCATCAGTAGCATTGGGC
CATATTGGAATCTTCAAAGTGTGAATTATTTTGAAGAGCATTCATTTTTGTAATTTTTTT
CATCAAGAATATTCTGGTAAGCAGAAGACTTTTTAAAAAAAAACAATTGATTGGTTGGTA
CAGGTTTTAATATTGCCCAACATAATGCTGTGGTAGCATTAAAAAAAAAAAAGTATTTGT
GAACTCTTTGTTTCTTAGGGGCTTGTACATCTCTCTGCTATGGACATAGATTAAAATTGT
AATTATACTCAGCTCAACTGCTACAGTTATGTCTAGGCAGTGGCTTGGGTTTTTATCGAG
CAACAACTTAGACACGTGACTGTAATATGCTGCAACTGTGTGTACTGAAAATATGTGAAA
ATGGTTGAATGTGGACTGTGTATATATGTATGTAAAAATTTCTGTGAGATGCTGCTGTCG
CCACTTAACATGAAATAATGTTCTAGTGGATTTTAATCCCAGTGGCCAGTTCTATGATAC
TGTATGTATTGTACAGCTGATGACAGGAGTAAGACTGTTCAGTGAATATTTGTTAAATTT
TATTGTCGTGGCCAGAGATAATTTCAGAATAAAATTTTAATGTCCTAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTGGTCGCGGTCTCATCTGGCTCCGTTTCTTGCACCCCCAGAGCGTGCATTACCACTTCA
GTGTATTGCCACAAGAGTGAAACCACAGTGATGCAAGGCAGTGTAGACGAACAGTAGAGG
AGAAATTGTGCCCTTAGTGTTGACAATGTGCCTTTTGTTCTGAACGCCATGTTGTAGGGC
TTGCATTTTTTGACCTCTTTAACTCTTTGAATACTAGACAGTAAGGCCGGAACCCACCTC
TGCAAAGATCCATCTATCTGTCTTAAACATCCAGTTACTCACAGGCCTTAATAGAAACCA
TAAGGCGTGAATCATCGTCAGGCACGGAGAAAGGTAACCACTGGTTAGTTACACAGGGAC
TTCTTAGGTGTAAGGGGTTAAAGATGGTCTCTGTTGTATCTTAACATCAGACTGATTTTT
TAAATGATATATTTTTTGTTGTTGTTGTTAGGCGAATGACACTAGACAAAAATCAACTGT
ATTTGTAAAAATTTACCTCAGACCATTTAATTTTATAGTGTGATTAATCCCAGGGCATTT
GGTATGAACCAAAGTGCATTCCTTTTCTATGTGCCTGGCTCTAGTAAGGATGGCCAGGGA
TTTTTACTATTTGGGTGCAAGGCACTTAAGCCACTTTTAAACTTAATGGGTGGTTTGGAG
TCATGTGGAAGGACTCCATCAGAATGTTAGGAGACACTTTAGGCATCAGTAGCATTGGGC
CATATTGGAATCTTCAAAGTGTGAATTATTTTGAAGAGCATTCATTTTTGTAATTTTTTT
CATCAAGAATATTCTGGTAAGCAGAAGACTTTTTAAAAAAAAACAATTGATTGGTTGGTA
CAGGTTTTAATATTGCCCAACATAATGCTGTGGTAGCATTAAAAAAAAAAAAGTATTTGT
GAACTCTTTGTTTCTTAGGGGCTTGTACATCTCTCTGCTATGGACATAGATTAAAATTGT
AATTATACTCAGCTCAACTGCTACAGTTATGTCTAGGCAGTGGCTTGGGTTTTTATCGAG
CAACAACTTAGACACGTGACTGTAATATGCTGCAACTGTGTGTACTGAAAATATGTGAAA
ATGGTTGAATGTGGACTGTGTATATATGTATGTAAAAATTTCTGTGAGATGCTGCTGTCG
CCACTTAACATGAAATAATGTTCTAGTGGATTTTAATCCCAGTGGCCAGTTCTATGATAC
TGTATGTATTGTACAGCTGATGACAGGAGTAAGACTGTTCAGTGAATATTTGTTAAATTT
TATTGTCGTGGCCAGAGATAATTTCAGAATAAAATTTTAATGTCCTAC

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

More info

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

Help | Less info


               
               508-661, - strand, RNAz p=0.993664
               

               
               955-1071, - strand, RNAz p=0.930995
               

               
               1112-1231, + strand, RNAz p=0.984222

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

Help | Less info

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


               
               508-661, - strand, RNAz p=0.993664
               

               
               955-1071, - strand, RNAz p=0.930995
               

               
               1112-1231, + strand, RNAz p=0.984222

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               1112-1231, BP102352 ORCS bovine liver cDNA Bos taurus cDNA clone ORCS23003 3', 
(dbj|BP102352.1|), blast E-value=0, identity=98.33% 
               

               
               1112-1231, PKO602601228.R1 CSEQFXL08 stomach-reticulum Bos taurus cDNA, mRNA 
(gb|CB171477.1|), blast E-value=0, identity=98.33% 
               

               
               1112-1231, 4127612 BARC 8BOV Bos taurus cDNA clone 8BOV_45H14 5', mRNA 
(gb|CN792709.1|), blast E-value=0, identity=98.33% 
               

               
               1112-1231, POSM0605004_E04F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV896501.1|), blast E-value=0, identity=100% 
               

               
               1112-1231, POSM0605007_C15F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV897755.1|), blast E-value=0, identity=100% 
               

               
               1112-1231, POSM0605003_A24F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV904444.1|), blast E-value=0, identity=100%

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


               
               1112-1231, BP102352 ORCS bovine liver cDNA Bos taurus cDNA clone ORCS23003 3', 
(dbj|BP102352.1|), blast E-value=0, identity=98.33% 
               

               
               1112-1231, PKO602601228.R1 CSEQFXL08 stomach-reticulum Bos taurus cDNA, mRNA 
(gb|CB171477.1|), blast E-value=0, identity=98.33% 
               

               
               1112-1231, 4127612 BARC 8BOV Bos taurus cDNA clone 8BOV_45H14 5', mRNA 
(gb|CN792709.1|), blast E-value=0, identity=98.33% 
               

               
               1112-1231, POSM0605004_E04F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV896501.1|), blast E-value=0, identity=100% 
               

               
               1112-1231, POSM0605007_C15F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV897755.1|), blast E-value=0, identity=100% 
               

               
               1112-1231, POSM0605003_A24F porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV904444.1|), blast E-value=0, identity=100%

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

Help | Less info


               
               1-1308, gnl|bosTau2|chr5 (30028907-30030180)
               

               
               1-1308, gnl|Hg17|chr12 (66341427-66342707)
               

               
               1-1308, gnl|Mm7|chr10 (118256502-118255194)

Aligned organism(s): 3 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


               
               1-1308, gnl|bosTau2|chr5 (30028907-30030180)
               

               
               1-1308, gnl|Hg17|chr12 (66341427-66342707)
               

               
               1-1308, gnl|Mm7|chr10 (118256502-118255194)

Expressed library(ies): 16 entry(ies)

More info

Expressed library(ies): 16 entry(ies)

Help | Less info


               
               ste (0.270416)
               

               
               sug (0.254582)
               

               
               bla (0.248694)
               

               
               tes (0.207814)
               

               
               hea (0.204499)
               

               
               fty (0.17584)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               ski (0.146735)
               

               
               lin (0.145603)
               

               
               spl (0.143184)
               

               
               csk (0.140746)
               

               
               thg (0.126791)
               

               
               tra (0.123092)
               

               
               eru (0.120048)
               

               
               jej (0.0989218)

Expressed library(ies): 16 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


               
               ste (0.270416)
               

               
               sug (0.254582)
               

               
               bla (0.248694)
               

               
               tes (0.207814)
               

               
               hea (0.204499)
               

               
               fty (0.17584)
               

               
               sin (0.174948)
               

               
               rec (0.17307)
               

               
               ski (0.146735)
               

               
               lin (0.145603)
               

               
               spl (0.143184)
               

               
               csk (0.140746)
               

               
               thg (0.126791)
               

               
               tra (0.123092)
               

               
               eru (0.120048)
               

               
               jej (0.0989218)

	508-661, - strand, RNAz p=0.993664
	955-1071, - strand, RNAz p=0.930995
	1112-1231, + strand, RNAz p=0.984222

	1112-1231, BP102352 ORCS bovine liver cDNA Bos taurus cDNA clone ORCS23003 3', (dbj\|BP102352.1\|), blast E-value=0, identity=98.33%
	1112-1231, PKO602601228.R1 CSEQFXL08 stomach-reticulum Bos taurus cDNA, mRNA (gb\|CB171477.1\|), blast E-value=0, identity=98.33%
	1112-1231, 4127612 BARC 8BOV Bos taurus cDNA clone 8BOV_45H14 5', mRNA (gb\|CN792709.1\|), blast E-value=0, identity=98.33%
	1112-1231, POSM0605004_E04F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV896501.1\|), blast E-value=0, identity=100%
	1112-1231, POSM0605007_C15F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV897755.1\|), blast E-value=0, identity=100%
	1112-1231, POSM0605003_A24F porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV904444.1\|), blast E-value=0, identity=100%

	1-1308, gnl\|bosTau2\|chr5 (30028907-30030180)
	1-1308, gnl\|Hg17\|chr12 (66341427-66342707)
	1-1308, gnl\|Mm7\|chr10 (118256502-118255194)

	ste (0.270416)
	sug (0.254582)
	bla (0.248694)
	tes (0.207814)
	hea (0.204499)
	fty (0.17584)
	sin (0.174948)
	rec (0.17307)
	ski (0.146735)
	lin (0.145603)
	spl (0.143184)
	csk (0.140746)
	thg (0.126791)
	tra (0.123092)
	eru (0.120048)
	jej (0.0989218)