Non-Coding RNA Search

Ss1.1-Pig4-TMW8009O04.5

Sequence:


               
               TTTTTGTGGAATGAATAATGTTTCTTAGATTGAAGACTTCTGTTCCAGGGGTCCAGGAGG
CTTAGGGTTAGAGCCTCTGGCAGGATCCTGGTGACACCCAGCTAGGCCTTGAGCCTTCTG
GGGCTTCTCAGAGAAATCTTGAAGGCATTGGGCTATAAGATTTGTAAACATTTTAGTATA
ACATGTTTTTTACAGTTTATATCTAAGGAACAACGTTTCCCCAAAGTATCCCTTTTATAG
ATTTGACTGCATGTTGATAGCTTTATTAACATCAACAAGCATTTATTTATTTCTACCTTT
GCCCTATGTTTTGTATTAATAATATTCCATCTGGAGGGCTTTAGTATCTTTAGAGAGGCA
TACTTGGCTCAAAAAGGCATGTTTGTTATAAAATACAGTTTTATACTTACTTGGAAAATG
GAGAATCAACAAGTGTTGCTTTTTATAATACAAACTTCAAATGATACAAGCCATATTCAA
TACAAAATCTTATGTGTTGGGCTTGAGGAAAAGCCACCGGGTAATATCTCCCAGATGGGA
GATATAAACGGGCTATCAGAATCTCCTAGACGAAGGCTGAGGTTTTATGAGTGGAAAAGA
TTGGGGAAAACTGTCTTTAAAGAAACTAATGACTATGTTTTGGAAAGATTCTGTGTTGAA
AATTGTTAGTAGAAGATAATAGTAACTGAAGAGTTACAGTTTTCTACATGTTCTTGGAGT
ATTTGTTATTAGACCTGTTATATTGGTGAACTAGTTTTTCTGAAGCATTAATTATATATT
TATACTTTCAGAATATGCTTACTTTTATAAGTATACTTAAAACGCTCTGACTTGTTTGAA
AATAGTTTTATTCTTCTCCCCAACTGTTACTTTTAACACAGAGCCAAATATTCTGTGATT
ATGAAGGTATTAATTGAATAGAATAAACTGTTGTGTATACTAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               TTTTTGTGGAATGAATAATGTTTCTTAGATTGAAGACTTCTGTTCCAGGGGTCCAGGAGG
CTTAGGGTTAGAGCCTCTGGCAGGATCCTGGTGACACCCAGCTAGGCCTTGAGCCTTCTG
GGGCTTCTCAGAGAAATCTTGAAGGCATTGGGCTATAAGATTTGTAAACATTTTAGTATA
ACATGTTTTTTACAGTTTATATCTAAGGAACAACGTTTCCCCAAAGTATCCCTTTTATAG
ATTTGACTGCATGTTGATAGCTTTATTAACATCAACAAGCATTTATTTATTTCTACCTTT
GCCCTATGTTTTGTATTAATAATATTCCATCTGGAGGGCTTTAGTATCTTTAGAGAGGCA
TACTTGGCTCAAAAAGGCATGTTTGTTATAAAATACAGTTTTATACTTACTTGGAAAATG
GAGAATCAACAAGTGTTGCTTTTTATAATACAAACTTCAAATGATACAAGCCATATTCAA
TACAAAATCTTATGTGTTGGGCTTGAGGAAAAGCCACCGGGTAATATCTCCCAGATGGGA
GATATAAACGGGCTATCAGAATCTCCTAGACGAAGGCTGAGGTTTTATGAGTGGAAAAGA
TTGGGGAAAACTGTCTTTAAAGAAACTAATGACTATGTTTTGGAAAGATTCTGTGTTGAA
AATTGTTAGTAGAAGATAATAGTAACTGAAGAGTTACAGTTTTCTACATGTTCTTGGAGT
ATTTGTTATTAGACCTGTTATATTGGTGAACTAGTTTTTCTGAAGCATTAATTATATATT
TATACTTTCAGAATATGCTTACTTTTATAAGTATACTTAAAACGCTCTGACTTGTTTGAA
AATAGTTTTATTCTTCTCCCCAACTGTTACTTTTAACACAGAGCCAAATATTCTGTGATT
ATGAAGGTATTAATTGAATAGAATAAACTGTTGTGTATACTAAAAAAA

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

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

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               3-162, - strand, RNAz p=0.999983
               

               
               279-411, - strand, RNAz p=0.999845
               

               
               291-411, - strand, RNAz p=0.939301

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


               
               3-162, - strand, RNAz p=0.999983
               

               
               279-411, - strand, RNAz p=0.999845
               

               
               291-411, - strand, RNAz p=0.939301

Similar Transcript(s): 2 entry(ies)

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Similar Transcript(s): 2 entry(ies)

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               107-156, 1270124 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN525499.1|), 
blast E-value=0.00000000004, identity=94% 
               

               
               8-156, LB03056.CR_K05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE375263.1|), 
blast E-value=8e-25, identity=85.23%

Similar Transcript(s): 2 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


               
               107-156, 1270124 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN525499.1|), 
blast E-value=0.00000000004, identity=94% 
               

               
               8-156, LB03056.CR_K05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|EE375263.1|), 
blast E-value=8e-25, identity=85.23%

Aligned organism(s): 11 entry(ies)

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Aligned organism(s): 11 entry(ies)

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               3-411, gnl|bosTau2|chr3 (3214827-3214434)
               

               
               3-411, gnl|canFam2|chr7 (34492031-34491485)
               

               
               3-411, gnl|dasNov1|scaffold_10002 (12408-11765)
               

               
               3-411, gnl|hg17|chr1 (163563849-163564425)
               

               
               3-411, gnl|Hg17|chr1 (163564444-163564047)
               

               
               3-411, gnl|loxAfr1|scaffold_29829 (14804-14244)
               

               
               3-411, gnl|mm7|chr1 (166358623-166358228)
               

               
               3-411, gnl|oryCun1|scaffold_174948 (53402-53977)
               

               
               3-411, gnl|panTro1|chr1 (145801063-145801639)
               

               
               3-411, gnl|rheMac2|chr1 (196580834-196581411)
               

               
               3-411, gnl|rn3|chr13 (82134330-82133949)

Aligned organism(s): 11 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


               
               3-411, gnl|bosTau2|chr3 (3214827-3214434)
               

               
               3-411, gnl|canFam2|chr7 (34492031-34491485)
               

               
               3-411, gnl|dasNov1|scaffold_10002 (12408-11765)
               

               
               3-411, gnl|hg17|chr1 (163563849-163564425)
               

               
               3-411, gnl|Hg17|chr1 (163564444-163564047)
               

               
               3-411, gnl|loxAfr1|scaffold_29829 (14804-14244)
               

               
               3-411, gnl|mm7|chr1 (166358623-166358228)
               

               
               3-411, gnl|oryCun1|scaffold_174948 (53402-53977)
               

               
               3-411, gnl|panTro1|chr1 (145801063-145801639)
               

               
               3-411, gnl|rheMac2|chr1 (196580834-196581411)
               

               
               3-411, gnl|rn3|chr13 (82134330-82133949)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               isp (0.150376)
               

               
               ret (0.128733)

Expressed library(ies): 2 entry(ies)

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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


               
               isp (0.150376)
               

               
               ret (0.128733)

	3-162, - strand, RNAz p=0.999983
	279-411, - strand, RNAz p=0.999845
	291-411, - strand, RNAz p=0.939301

	107-156, 1270124 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN525499.1\|), blast E-value=0.00000000004, identity=94%
	8-156, LB03056.CR_K05 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|EE375263.1\|), blast E-value=8e-25, identity=85.23%

	3-411, gnl\|bosTau2\|chr3 (3214827-3214434)
	3-411, gnl\|canFam2\|chr7 (34492031-34491485)
	3-411, gnl\|dasNov1\|scaffold_10002 (12408-11765)
	3-411, gnl\|hg17\|chr1 (163563849-163564425)
	3-411, gnl\|Hg17\|chr1 (163564444-163564047)
	3-411, gnl\|loxAfr1\|scaffold_29829 (14804-14244)
	3-411, gnl\|mm7\|chr1 (166358623-166358228)
	3-411, gnl\|oryCun1\|scaffold_174948 (53402-53977)
	3-411, gnl\|panTro1\|chr1 (145801063-145801639)
	3-411, gnl\|rheMac2\|chr1 (196580834-196581411)
	3-411, gnl\|rn3\|chr13 (82134330-82133949)