Non-Coding RNA Search

Ss1.1-rpgl06_o1.5

Sequence:


               
               GGGGTGGGGGCCCACTCTGGCCCAGGCCTTTATTGGGGAAAACACTGAGGGTCACTTGGT
CTTGTTCTTGCCTTTCCCTGGAGGGGGCTGGAGGGGGCGCTCGAGTGCGGTCAGCTTGCT
GCTGAGCCTTTCCTCACTGGCCTTGAGCCGCTCCTCCACGAGTTTTTGGAGCTGCTCCAG
CTCCTTGTTCACCTGGGTCTTGATGTAGGTTCGGAGGATGGAAAGCTGGCTTGGCTCTTG
CTCTGGCTGGACTCCCGCTTCCGGTTCCTCCTCCTGTGGGCTGGCTGCTGGCTCCTCCAC
CTCTTCGCCCTCCTCTTTCTCCGTCTCATCCTCTGGCCAGAGCCTGGGTGGCTGTAGCCC
CATGTAAGTCAAAGAGAGATCCAGCCGCACCTGGGAAGAGGGAGGAAGACGGTGTCTGAG
GGTAGGATACCGCAGTGCGGGAAACCAGTGAGAAGCCCTGATGGCGGCAGAAGATGAGTA
TGTGGGAGAAGAGGTCCAGGGTGATGGCATCTCGCAGGTTCTGCTCAGGACAGCTGAGCC
CCAACAACTCAGCCAGCACCCATATGCAGATCCGGGGCTGGGGTAGCGGCGGCTGCGGGA
GAGAAAGCGGATTGGGAAAGGCAGAGCTGCGTTGTTAGTCCTGGCCCGTGGTTCTTTGCC
CTTGGTGAATCTCTGGTGGTCTAACAACGCGATACCTTGCCTTCTCATCTTAAAAACTGT
GTACTAGCAATACCGGCGGGCTGGGCTTCGGCGATCCCTAAGTACTATTCATGAGCGTAT
TGACAAGCAGTTCAAGCCTGCCTCTTCACCAAGGCAGCCCGGGAAACAAACGGCCCCCTG
CCTGGGAGCCCTTTTATAAACATTCATGAGCAGACCACTCTGACCTGTCCTCACCGGGAA
CAAGTTGGCTGCAGGATCTTCATTCGCATCCACTGAGGCCACGGTCCCTGACTCGGTCCG
CACTCCTGTTCCCATCCTCTTGGCCGATTCATCCAACGAGCTGAGGTCCTTCTCATGGTC
TTTCTCATGTTCTCGCCGCAGTTCGGAGTGCTGGTCCAGCTCCGACCGCCTTTTCAGTCG
CCGGAATTGGCTGGATTTCCGGCGGATCATCTGGTCGCTCCTCTGTGTCGCGGGTCCCCA
CCGTCTTTATCCTGCCTCGGTTCT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGGGTGGGGGCCCACTCTGGCCCAGGCCTTTATTGGGGAAAACACTGAGGGTCACTTGGT
CTTGTTCTTGCCTTTCCCTGGAGGGGGCTGGAGGGGGCGCTCGAGTGCGGTCAGCTTGCT
GCTGAGCCTTTCCTCACTGGCCTTGAGCCGCTCCTCCACGAGTTTTTGGAGCTGCTCCAG
CTCCTTGTTCACCTGGGTCTTGATGTAGGTTCGGAGGATGGAAAGCTGGCTTGGCTCTTG
CTCTGGCTGGACTCCCGCTTCCGGTTCCTCCTCCTGTGGGCTGGCTGCTGGCTCCTCCAC
CTCTTCGCCCTCCTCTTTCTCCGTCTCATCCTCTGGCCAGAGCCTGGGTGGCTGTAGCCC
CATGTAAGTCAAAGAGAGATCCAGCCGCACCTGGGAAGAGGGAGGAAGACGGTGTCTGAG
GGTAGGATACCGCAGTGCGGGAAACCAGTGAGAAGCCCTGATGGCGGCAGAAGATGAGTA
TGTGGGAGAAGAGGTCCAGGGTGATGGCATCTCGCAGGTTCTGCTCAGGACAGCTGAGCC
CCAACAACTCAGCCAGCACCCATATGCAGATCCGGGGCTGGGGTAGCGGCGGCTGCGGGA
GAGAAAGCGGATTGGGAAAGGCAGAGCTGCGTTGTTAGTCCTGGCCCGTGGTTCTTTGCC
CTTGGTGAATCTCTGGTGGTCTAACAACGCGATACCTTGCCTTCTCATCTTAAAAACTGT
GTACTAGCAATACCGGCGGGCTGGGCTTCGGCGATCCCTAAGTACTATTCATGAGCGTAT
TGACAAGCAGTTCAAGCCTGCCTCTTCACCAAGGCAGCCCGGGAAACAAACGGCCCCCTG
CCTGGGAGCCCTTTTATAAACATTCATGAGCAGACCACTCTGACCTGTCCTCACCGGGAA
CAAGTTGGCTGCAGGATCTTCATTCGCATCCACTGAGGCCACGGTCCCTGACTCGGTCCG
CACTCCTGTTCCCATCCTCTTGGCCGATTCATCCAACGAGCTGAGGTCCTTCTCATGGTC
TTTCTCATGTTCTCGCCGCAGTTCGGAGTGCTGGTCCAGCTCCGACCGCCTTTTCAGTCG
CCGGAATTGGCTGGATTTCCGGCGGATCATCTGGTCGCTCCTCTGTGTCGCGGGTCCCCA
CCGTCTTTATCCTGCCTCGGTTCT

Predicted RNA structure(s): 2 entry(ies)

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Predicted RNA structure(s): 2 entry(ies)

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               40-233, - strand, RNAz p=0.993105
               

               
               91-233, - strand, RNAz p=0.942539

Predicted RNA structure(s): 2 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


               
               40-233, - strand, RNAz p=0.993105
               

               
               91-233, - strand, RNAz p=0.942539

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               51-191, 471224 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI848711.1|), 
blast E-value=0, identity=92.2% 
               

               
               51-233, 601875 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB426668.1|), 
blast E-value=0, identity=90.71% 
               

               
               51-233, 616251 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB435943.1|), 
blast E-value=0, identity=90.71% 
               

               
               77-222, 966334 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775212.1|), 
blast E-value=1.96182e-44, identity=91.1% 
               

               
               40-233, UMC-pd3ov3-006-c03 Oviduct gilt D3 of estrous cycle pd3ov Sus 
(gb|CO990671.1|), blast E-value=0, identity=98.45% 
               

               
               49-218, HHAGE008987 Human liver regeneration after partial hepatectomy Homo 
(gb|DW467715.1|), blast E-value=1.96182e-44, identity=88.82%

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


               
               51-191, 471224 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb|BI848711.1|), 
blast E-value=0, identity=92.2% 
               

               
               51-233, 601875 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB426668.1|), 
blast E-value=0, identity=90.71% 
               

               
               51-233, 616251 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb|CB435943.1|), 
blast E-value=0, identity=90.71% 
               

               
               77-222, 966334 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb|CK775212.1|), 
blast E-value=1.96182e-44, identity=91.1% 
               

               
               40-233, UMC-pd3ov3-006-c03 Oviduct gilt D3 of estrous cycle pd3ov Sus 
(gb|CO990671.1|), blast E-value=0, identity=98.45% 
               

               
               49-218, HHAGE008987 Human liver regeneration after partial hepatectomy Homo 
(gb|DW467715.1|), blast E-value=1.96182e-44, identity=88.82%

Aligned organism(s): 18 entry(ies)

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Aligned organism(s): 18 entry(ies)

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               1-233, gnl|bosTau2|chr25 (25677892-25677659)
               

               
               1-233, gnl|canFam2|chr6 (20429892-20429304)
               

               
               1-233, gnl|dasNov1|scaffold_13022 (17838-17250)
               

               
               1-233, gnl|echTel1|scaffold_307548 (43129-43686)
               

               
               1-233, gnl|hg17|chr16 (30675919-30676498)
               

               
               1-233, gnl|Hg17|chr16 (30676251-30676479)
               

               
               1-233, gnl|loxAfr1|scaffold_10686 (5084-5654)
               

               
               1-233, gnl|mm7|chr7 (123679587-123680164)
               

               
               1-233, gnl|Mm7|chr7 (123679929-123680150)
               

               
               1-233, gnl|monDom2|scaffold_17 (8777973-8778591)
               

               
               1-233, gnl|oryCun1|scaffold_209057 (49083-48515)
               

               
               1-233, gnl|panTro1|chr18 (31455262-31455841)
               

               
               1-233, gnl|rheMac2|chr20 (28832637-28833198)
               

               
               1-233, gnl|rn3|chr1 (187020209-187020791)
               


               
               560-719, gnl|bosTau2|chr25 (25674723-25674568)
               


               
               832-1163, gnl|bosTau2|chr25 (25674132-25673816)
               

               
               832-1163, gnl|Hg17|chr16 (30680305-30680622)
               

               
               832-1163, gnl|Mm7|chr7 (123684377-123684694)

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


               
               1-233, gnl|bosTau2|chr25 (25677892-25677659)
               

               
               1-233, gnl|canFam2|chr6 (20429892-20429304)
               

               
               1-233, gnl|dasNov1|scaffold_13022 (17838-17250)
               

               
               1-233, gnl|echTel1|scaffold_307548 (43129-43686)
               

               
               1-233, gnl|hg17|chr16 (30675919-30676498)
               

               
               1-233, gnl|Hg17|chr16 (30676251-30676479)
               

               
               1-233, gnl|loxAfr1|scaffold_10686 (5084-5654)
               

               
               1-233, gnl|mm7|chr7 (123679587-123680164)
               

               
               1-233, gnl|Mm7|chr7 (123679929-123680150)
               

               
               1-233, gnl|monDom2|scaffold_17 (8777973-8778591)
               

               
               1-233, gnl|oryCun1|scaffold_209057 (49083-48515)
               

               
               1-233, gnl|panTro1|chr18 (31455262-31455841)
               

               
               1-233, gnl|rheMac2|chr20 (28832637-28833198)
               

               
               1-233, gnl|rn3|chr1 (187020209-187020791)
               


               
               560-719, gnl|bosTau2|chr25 (25674723-25674568)
               


               
               832-1163, gnl|bosTau2|chr25 (25674132-25673816)
               

               
               832-1163, gnl|Hg17|chr16 (30680305-30680622)
               

               
               832-1163, gnl|Mm7|chr7 (123684377-123684694)

Expressed library(ies): 3 entry(ies)

More info

Expressed library(ies): 3 entry(ies)

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               cty (0.20816)
               

               
               ova (0.129132)
               

               
               pgl (0.118483)

Expressed library(ies): 3 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


               
               cty (0.20816)
               

               
               ova (0.129132)
               

               
               pgl (0.118483)

	40-233, - strand, RNAz p=0.993105
	91-233, - strand, RNAz p=0.942539

	51-191, 471224 MARC 2BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI848711.1\|), blast E-value=0, identity=92.2%
	51-233, 601875 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB426668.1\|), blast E-value=0, identity=90.71%
	51-233, 616251 MARC 6BOV Bos taurus cDNA 5', mRNA sequence (gb\|CB435943.1\|), blast E-value=0, identity=90.71%
	77-222, 966334 MARC 3BOV Bos taurus cDNA 3', mRNA sequence (gb\|CK775212.1\|), blast E-value=1.96182e-44, identity=91.1%
	40-233, UMC-pd3ov3-006-c03 Oviduct gilt D3 of estrous cycle pd3ov Sus (gb\|CO990671.1\|), blast E-value=0, identity=98.45%
	49-218, HHAGE008987 Human liver regeneration after partial hepatectomy Homo (gb\|DW467715.1\|), blast E-value=1.96182e-44, identity=88.82%

	1-233, gnl\|bosTau2\|chr25 (25677892-25677659)
	1-233, gnl\|canFam2\|chr6 (20429892-20429304)
	1-233, gnl\|dasNov1\|scaffold_13022 (17838-17250)
	1-233, gnl\|echTel1\|scaffold_307548 (43129-43686)
	1-233, gnl\|hg17\|chr16 (30675919-30676498)
	1-233, gnl\|Hg17\|chr16 (30676251-30676479)
	1-233, gnl\|loxAfr1\|scaffold_10686 (5084-5654)
	1-233, gnl\|mm7\|chr7 (123679587-123680164)
	1-233, gnl\|Mm7\|chr7 (123679929-123680150)
	1-233, gnl\|monDom2\|scaffold_17 (8777973-8778591)
	1-233, gnl\|oryCun1\|scaffold_209057 (49083-48515)
	1-233, gnl\|panTro1\|chr18 (31455262-31455841)
	1-233, gnl\|rheMac2\|chr20 (28832637-28833198)
	1-233, gnl\|rn3\|chr1 (187020209-187020791)

	560-719, gnl\|bosTau2\|chr25 (25674723-25674568)

	832-1163, gnl\|bosTau2\|chr25 (25674132-25673816)
	832-1163, gnl\|Hg17\|chr16 (30680305-30680622)
	832-1163, gnl\|Mm7\|chr7 (123684377-123684694)