Non-Coding RNA Search

Ss1.1-rhyp12c_e1.5

Sequence:


               
               AAAGTGTCACAGCCCTGGTCCACCCCAGTTGCCGAAAGTGGGACTCCCCCAGCACGAGGA
TGGGTTGCATATTCACCATGACCTTTGCTAGTGGGGACAGGCCCTCCCACCCCTTGAACA
TATTGTCATTGAGTCCAAAGAACCTCCAGACCCTGGGTAACACCATTCTCCCCCGATACC
CCAGGGTCCCGAGGCAGTTTCTTCCTGCTCTCCAAGCCACTCCAAACCACCCCACCCTTA
GCCCCACCAGAGAGCCACCAGTAGTAAGTAAAAGCCACCATGTACAAAGTATTTTTTAAA
AATACACAGCCAGATGAGCATTGGCCCCTCCAAAGCAGTCATTCAGCGAGGCAGTTGGTA
CATATTTCAATCCCAGGTTGATCTTTCTCCAGAGCCCAAGCTTTTCCTGATGCAGTATTG
TGTCTTTGCCTCCATGCAAAGTCGCCTCTTGGGGAAGGGAACTAATATCTGTATAGTACT
TAACAGTTTACACTGTGTCACCACCTGACCAGCTCCTTTAGTCCTCACGACTTAGCGAGG
TAGGTGCTGTTGTCCCCATTTTCCAGTCAAGGTATCAGGAAGTTTAAGGAAGTTGCCCGA
GGTTACACAGCTCAGAAGGGGCAGAGCTGGGATGCAGACCCAGGTCTGTTGGACTCCAAA
CCTTGGGTTCTCCCTGTGGCCTCTGGAGGAAGAACTGGGAGGGATCTACCTGCCCTCACA
TGCCTGGCCCTCATCTCTCCCCACCTCCCCTCCTCACATGTCCTGAGGGGTAGCTGGCCA
GCCTTGGGCCCTCCCCAGGCACTCACAGCCGCTCTTGCTCCCACAGCCTCTTACCACTTC
CCCAGCCTCCACAGCAAGGGCCGGCTGCCTTCTCCCCATGTGCTCCAACCCCAGGGGCAG
GTCCTCAGACTGCAGCACAGCAAGCTGGTGGGCTCTGAGGCCCTGTCGACCACAGGCAAG
GCCTTGATGACTCTACCTACCGCCAAGGTTTTGATTTCCCTCCCACCTAACCCTGAGCTC
AAGCTGCCATCCAACGCCCTGAAACCAAGAGAGGTGGGCTTTGAACTGTGACCTGTACCC
TAGTAGGCAGTGCTGAGTACTGGGGTCAGGGCTGGAGGGCAGGTAGAGGGAAGCCCCCAG
GCTGACCTGAGCCCCAAGGGAAGAGCTTGTATCCCTTAGAACCCCCTTCCTGGACAGATT
CCTGATCGTCTCTCCCCTTCTCCCCTCCTTTCACACTGAGGCTCTTGCTCCCCAGTGCGT
TCACGGTCCCCAGCTTGGAAGTAACTTGTGGTCTCCACCCTTTGAAGCTGGGAGTCTTCC
TAGCACCCATGGGAAGATCAAGGCCAAAGGCAAGTTCAAGGCCAGACTTTGTGACAAACC
CAAGGCTGAGAAATGCCTCATGACAACACTGAGCCTTCCAGGACCCCTGCCCTGTATCAG
TGCACATCATGGGCTGGCGGGAATGAGGGACATGAGGCTACAGAAGCCCTTGCTTCCATC
CTCACTGCCCTTATCCTGGATGCAGCACCAAATAAAAAAGAAAATGAAGTAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AAAGTGTCACAGCCCTGGTCCACCCCAGTTGCCGAAAGTGGGACTCCCCCAGCACGAGGA
TGGGTTGCATATTCACCATGACCTTTGCTAGTGGGGACAGGCCCTCCCACCCCTTGAACA
TATTGTCATTGAGTCCAAAGAACCTCCAGACCCTGGGTAACACCATTCTCCCCCGATACC
CCAGGGTCCCGAGGCAGTTTCTTCCTGCTCTCCAAGCCACTCCAAACCACCCCACCCTTA
GCCCCACCAGAGAGCCACCAGTAGTAAGTAAAAGCCACCATGTACAAAGTATTTTTTAAA
AATACACAGCCAGATGAGCATTGGCCCCTCCAAAGCAGTCATTCAGCGAGGCAGTTGGTA
CATATTTCAATCCCAGGTTGATCTTTCTCCAGAGCCCAAGCTTTTCCTGATGCAGTATTG
TGTCTTTGCCTCCATGCAAAGTCGCCTCTTGGGGAAGGGAACTAATATCTGTATAGTACT
TAACAGTTTACACTGTGTCACCACCTGACCAGCTCCTTTAGTCCTCACGACTTAGCGAGG
TAGGTGCTGTTGTCCCCATTTTCCAGTCAAGGTATCAGGAAGTTTAAGGAAGTTGCCCGA
GGTTACACAGCTCAGAAGGGGCAGAGCTGGGATGCAGACCCAGGTCTGTTGGACTCCAAA
CCTTGGGTTCTCCCTGTGGCCTCTGGAGGAAGAACTGGGAGGGATCTACCTGCCCTCACA
TGCCTGGCCCTCATCTCTCCCCACCTCCCCTCCTCACATGTCCTGAGGGGTAGCTGGCCA
GCCTTGGGCCCTCCCCAGGCACTCACAGCCGCTCTTGCTCCCACAGCCTCTTACCACTTC
CCCAGCCTCCACAGCAAGGGCCGGCTGCCTTCTCCCCATGTGCTCCAACCCCAGGGGCAG
GTCCTCAGACTGCAGCACAGCAAGCTGGTGGGCTCTGAGGCCCTGTCGACCACAGGCAAG
GCCTTGATGACTCTACCTACCGCCAAGGTTTTGATTTCCCTCCCACCTAACCCTGAGCTC
AAGCTGCCATCCAACGCCCTGAAACCAAGAGAGGTGGGCTTTGAACTGTGACCTGTACCC
TAGTAGGCAGTGCTGAGTACTGGGGTCAGGGCTGGAGGGCAGGTAGAGGGAAGCCCCCAG
GCTGACCTGAGCCCCAAGGGAAGAGCTTGTATCCCTTAGAACCCCCTTCCTGGACAGATT
CCTGATCGTCTCTCCCCTTCTCCCCTCCTTTCACACTGAGGCTCTTGCTCCCCAGTGCGT
TCACGGTCCCCAGCTTGGAAGTAACTTGTGGTCTCCACCCTTTGAAGCTGGGAGTCTTCC
TAGCACCCATGGGAAGATCAAGGCCAAAGGCAAGTTCAAGGCCAGACTTTGTGACAAACC
CAAGGCTGAGAAATGCCTCATGACAACACTGAGCCTTCCAGGACCCCTGCCCTGTATCAG
TGCACATCATGGGCTGGCGGGAATGAGGGACATGAGGCTACAGAAGCCCTTGCTTCCATC
CTCACTGCCCTTATCCTGGATGCAGCACCAAATAAAAAAGAAAATGAAGTAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

Predicted RNA structure(s): 4 entry(ies)

More info

Predicted RNA structure(s): 4 entry(ies)

Help | Less info


               
               1-219, - strand, RNAz p=0.998521
               

               
               469-585, - strand, RNAz p=0.999271
               

               
               1135-1293, - strand, RNAz p=0.935995
               

               
               1334-1550, - strand, RNAz p=0.946684

Predicted RNA structure(s): 4 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


               
               1-219, - strand, RNAz p=0.998521
               

               
               469-585, - strand, RNAz p=0.999271
               

               
               1135-1293, - strand, RNAz p=0.935995
               

               
               1334-1550, - strand, RNAz p=0.946684

Similar Transcript(s): 3 entry(ies)

More info

Similar Transcript(s): 3 entry(ies)

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               37-168, DKFZp434K1415_r1 434 (synonym (emb|AL040931.1|), blast E-value=2e-26, 
identity=87.12% 
               

               
               1-218, LB02948.CR_C01 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE353973.1|), 
blast E-value=2e-20, identity=81.19% 
               

               
               1-218, LB029112.CR_G19 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE370006.1|), 
blast E-value=2e-20, identity=81.19%

Similar Transcript(s): 3 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


               
               37-168, DKFZp434K1415_r1 434 (synonym (emb|AL040931.1|), blast E-value=2e-26, 
identity=87.12% 
               

               
               1-218, LB02948.CR_C01 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE353973.1|), 
blast E-value=2e-20, identity=81.19% 
               

               
               1-218, LB029112.CR_G19 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE370006.1|), 
blast E-value=2e-20, identity=81.19%

Aligned organism(s): 5 entry(ies)

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Aligned organism(s): 5 entry(ies)

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               1-600, gnl|bosTau2|chr22 (11972935-11973564)
               

               
               1-600, gnl|Mm7|chr6 (113573997-113574583)
               


               
               993-1550, gnl|bosTau2|chr22 (11973563-11974122)
               

               
               993-1550, gnl|Hg17|chr3 (9851583-9852087)
               

               
               993-1550, gnl|Mm7|chr6 (113574582-113575522)

Aligned organism(s): 5 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


               
               1-600, gnl|bosTau2|chr22 (11972935-11973564)
               

               
               1-600, gnl|Mm7|chr6 (113573997-113574583)
               


               
               993-1550, gnl|bosTau2|chr22 (11973563-11974122)
               

               
               993-1550, gnl|Hg17|chr3 (9851583-9852087)
               

               
               993-1550, gnl|Mm7|chr6 (113574582-113575522)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               fce (0.543183)
               

               
               mas (0.42061)
               

               
               nep (0.36785)
               

               
               pgl (0.236967)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               hyp (0.142837)
               

               
               hlv (0.139256)
               

               
               nca (0.136874)
               

               
               nmm (0.132802)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)
               

               
               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


               
               fce (0.543183)
               

               
               mas (0.42061)
               

               
               nep (0.36785)
               

               
               pgl (0.236967)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               hyp (0.142837)
               

               
               hlv (0.139256)
               

               
               nca (0.136874)
               

               
               nmm (0.132802)
               

               
               med (0.116252)
               

               
               ecc (0.115035)
               

               
               nbm (0.0993246)
               

               
               eje (0.0988338)

	1-219, - strand, RNAz p=0.998521
	469-585, - strand, RNAz p=0.999271
	1135-1293, - strand, RNAz p=0.935995
	1334-1550, - strand, RNAz p=0.946684

	37-168, DKFZp434K1415_r1 434 (synonym (emb\|AL040931.1\|), blast E-value=2e-26, identity=87.12%
	1-218, LB02948.CR_C01 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE353973.1\|), blast E-value=2e-20, identity=81.19%
	1-218, LB029112.CR_G19 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE370006.1\|), blast E-value=2e-20, identity=81.19%

	1-600, gnl\|bosTau2\|chr22 (11972935-11973564)
	1-600, gnl\|Mm7\|chr6 (113573997-113574583)

	993-1550, gnl\|bosTau2\|chr22 (11973563-11974122)
	993-1550, gnl\|Hg17\|chr3 (9851583-9852087)
	993-1550, gnl\|Mm7\|chr6 (113574582-113575522)

	fce (0.543183)
	mas (0.42061)
	nep (0.36785)
	pgl (0.236967)
	fbs (0.175346)
	mcp (0.170648)
	hyp (0.142837)
	hlv (0.139256)
	nca (0.136874)
	nmm (0.132802)
	med (0.116252)
	ecc (0.115035)
	nbm (0.0993246)
	eje (0.0988338)