Non-Coding RNA Search

Ss1.1-Pig3-SRG8007K16.3

Sequence:


               
               GCTTGTCCATAGCAGGGCCTCTGAACAAGTGGCTGGAACAAACCAGCAGCTCCCTGAAGA
GGGTCTGATTCCTGGGCAGAGCCCCAGTATTCCGTCTTTGTCTCGGTCAAAACAAACTTC
CTTTCCGCTTGATTACCCTTCACGAAGTTGCCCACCTTGCACTTTTTGAAGAGATCACCC
GCTCCCACTTCCTGACTTGGTTTCCCGTGTTGGCTGGGGGCCTCCATAGGGTGCTGGGCC
TGGGCCAAGTAGTGATGACTGAGCATAACTGAAGGGCCCTTCTAGGCCCACATCCTCTTG
GTGCGGGCTCTGCTCACCCATGTTCCCTGCAGAAGGTGGGGCCCATTCTCAGCCAGGAAT
TGGAGTCCCTGCTGCTGACTGCCTGCTTCTATTTGAAGGAGGCCCCATCTTTATATTCCT
CCCAGCACCGTCCCCCCTTTCAGGTTGACCAGCAGTGACCTTACTCACCTGGGCTCTCAG
GTGCATAGAGGCTCTTCTTCCTCAGGGCCGCCTCTTGATAGAGTAAGGCTTTCAACCTGT
CATATGTGCACCATGTTTTCAAAGGCAGGGATTTTGGCTGGGAGGGTAGCTGGGGAGAGG
CGTACTTTGGGTGTGAAAGTGTTGAGGTTTTAGAACCTGTGGATGGTTTATGAAAATAGA
GGCCCAGACTTTGTAAAATCTAGGGTTTTATGGCCAGTGGCTTTCAAATCCATGGGCTCT
TTGAAAACCCTGTCCTCCTCCTCCCCGCTTCTACCAAATGCTCATCTGTTGAATCCCCTA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCTTGTCCATAGCAGGGCCTCTGAACAAGTGGCTGGAACAAACCAGCAGCTCCCTGAAGA
GGGTCTGATTCCTGGGCAGAGCCCCAGTATTCCGTCTTTGTCTCGGTCAAAACAAACTTC
CTTTCCGCTTGATTACCCTTCACGAAGTTGCCCACCTTGCACTTTTTGAAGAGATCACCC
GCTCCCACTTCCTGACTTGGTTTCCCGTGTTGGCTGGGGGCCTCCATAGGGTGCTGGGCC
TGGGCCAAGTAGTGATGACTGAGCATAACTGAAGGGCCCTTCTAGGCCCACATCCTCTTG
GTGCGGGCTCTGCTCACCCATGTTCCCTGCAGAAGGTGGGGCCCATTCTCAGCCAGGAAT
TGGAGTCCCTGCTGCTGACTGCCTGCTTCTATTTGAAGGAGGCCCCATCTTTATATTCCT
CCCAGCACCGTCCCCCCTTTCAGGTTGACCAGCAGTGACCTTACTCACCTGGGCTCTCAG
GTGCATAGAGGCTCTTCTTCCTCAGGGCCGCCTCTTGATAGAGTAAGGCTTTCAACCTGT
CATATGTGCACCATGTTTTCAAAGGCAGGGATTTTGGCTGGGAGGGTAGCTGGGGAGAGG
CGTACTTTGGGTGTGAAAGTGTTGAGGTTTTAGAACCTGTGGATGGTTTATGAAAATAGA
GGCCCAGACTTTGTAAAATCTAGGGTTTTATGGCCAGTGGCTTTCAAATCCATGGGCTCT
TTGAAAACCCTGTCCTCCTCCTCCCCGCTTCTACCAAATGCTCATCTGTTGAATCCCCTA

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

More info

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

Help | Less info


               
               199-376, - strand, RNAz p=0.999295
               

               
               200-481, + strand, RNAz p=0.999679
               

               
               617-733, - strand, RNAz p=0.737271
               

               
               647-779, - strand, RNAz p=0.775321

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


               
               199-376, - strand, RNAz p=0.999295
               

               
               200-481, + strand, RNAz p=0.999679
               

               
               617-733, - strand, RNAz p=0.737271
               

               
               647-779, - strand, RNAz p=0.775321

Similar Transcript(s): 2 entry(ies)

More info

Similar Transcript(s): 2 entry(ies)

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               310-481, LB02921.CR_B07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV920124.1|), 
blast E-value=4e-28, identity=85.8% 
               

               
               310-481, 000218BCEB010046HT BCEB Bos taurus cDNA, mRNA sequence 
(gb|DY180635.1|), blast E-value=4e-28, identity=85.8%

Similar Transcript(s): 2 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


               
               310-481, LB02921.CR_B07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|DV920124.1|), 
blast E-value=4e-28, identity=85.8% 
               

               
               310-481, 000218BCEB010046HT BCEB Bos taurus cDNA, mRNA sequence 
(gb|DY180635.1|), blast E-value=4e-28, identity=85.8%

Aligned organism(s): 20 entry(ies)

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Aligned organism(s): 20 entry(ies)

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               1-481, gnl|bosTau2|chr13 (30342295-30341810)
               

               
               1-481, gnl|canFam2|chr24 (19409471-19408854)
               

               
               1-481, gnl|hg17|chr20 (5122602-5123159)
               

               
               1-481, gnl|Hg17|chr20 (5122716-5123158)
               

               
               1-481, gnl|loxAfr1|scaffold_23733 (38620-39118)
               

               
               1-481, gnl|mm7|chr2 (132049643-132050149)
               

               
               1-481, gnl|oryCun1|scaffold_189921 (90035-89508)
               

               
               1-481, gnl|panTro1|chr21 (5088842-5089402)
               

               
               1-481, gnl|rheMac2|chr10 (38536383-38536945)
               

               
               1-481, gnl|rn3|chr3 (119972980-119973507)
               


               
               541-779, gnl|bosTau2|chr13 (30340181-30340416)
               

               
               541-779, gnl|canFam2|chr24 (19408810-19408494)
               

               
               541-779, gnl|hg17|chr20 (5123199-5123517)
               

               
               541-779, gnl|Hg17|chr20 (5123222-5123452)
               

               
               541-779, gnl|loxAfr1|scaffold_23733 (39155-39463)
               

               
               541-779, gnl|mm7|chr2 (132050187-132050480)
               

               
               541-779, gnl|oryCun1|scaffold_189921 (89466-89179)
               

               
               541-779, gnl|panTro1|chr21 (5089442-5089760)
               

               
               541-779, gnl|rheMac2|chr10 (38536985-38537301)
               

               
               541-779, gnl|rn3|chr3 (119973544-119973885)

Aligned organism(s): 20 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


               
               1-481, gnl|bosTau2|chr13 (30342295-30341810)
               

               
               1-481, gnl|canFam2|chr24 (19409471-19408854)
               

               
               1-481, gnl|hg17|chr20 (5122602-5123159)
               

               
               1-481, gnl|Hg17|chr20 (5122716-5123158)
               

               
               1-481, gnl|loxAfr1|scaffold_23733 (38620-39118)
               

               
               1-481, gnl|mm7|chr2 (132049643-132050149)
               

               
               1-481, gnl|oryCun1|scaffold_189921 (90035-89508)
               

               
               1-481, gnl|panTro1|chr21 (5088842-5089402)
               

               
               1-481, gnl|rheMac2|chr10 (38536383-38536945)
               

               
               1-481, gnl|rn3|chr3 (119972980-119973507)
               


               
               541-779, gnl|bosTau2|chr13 (30340181-30340416)
               

               
               541-779, gnl|canFam2|chr24 (19408810-19408494)
               

               
               541-779, gnl|hg17|chr20 (5123199-5123517)
               

               
               541-779, gnl|Hg17|chr20 (5123222-5123452)
               

               
               541-779, gnl|loxAfr1|scaffold_23733 (39155-39463)
               

               
               541-779, gnl|mm7|chr2 (132050187-132050480)
               

               
               541-779, gnl|oryCun1|scaffold_189921 (89466-89179)
               

               
               541-779, gnl|panTro1|chr21 (5089442-5089760)
               

               
               541-779, gnl|rheMac2|chr10 (38536985-38537301)
               

               
               541-779, gnl|rn3|chr3 (119973544-119973885)

	199-376, - strand, RNAz p=0.999295
	200-481, + strand, RNAz p=0.999679
	617-733, - strand, RNAz p=0.737271
	647-779, - strand, RNAz p=0.775321

	310-481, LB02921.CR_B07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|DV920124.1\|), blast E-value=4e-28, identity=85.8%
	310-481, 000218BCEB010046HT BCEB Bos taurus cDNA, mRNA sequence (gb\|DY180635.1\|), blast E-value=4e-28, identity=85.8%

	1-481, gnl\|bosTau2\|chr13 (30342295-30341810)
	1-481, gnl\|canFam2\|chr24 (19409471-19408854)
	1-481, gnl\|hg17\|chr20 (5122602-5123159)
	1-481, gnl\|Hg17\|chr20 (5122716-5123158)
	1-481, gnl\|loxAfr1\|scaffold_23733 (38620-39118)
	1-481, gnl\|mm7\|chr2 (132049643-132050149)
	1-481, gnl\|oryCun1\|scaffold_189921 (90035-89508)
	1-481, gnl\|panTro1\|chr21 (5088842-5089402)
	1-481, gnl\|rheMac2\|chr10 (38536383-38536945)
	1-481, gnl\|rn3\|chr3 (119972980-119973507)

	541-779, gnl\|bosTau2\|chr13 (30340181-30340416)
	541-779, gnl\|canFam2\|chr24 (19408810-19408494)
	541-779, gnl\|hg17\|chr20 (5123199-5123517)
	541-779, gnl\|Hg17\|chr20 (5123222-5123452)
	541-779, gnl\|loxAfr1\|scaffold_23733 (39155-39463)
	541-779, gnl\|mm7\|chr2 (132050187-132050480)
	541-779, gnl\|oryCun1\|scaffold_189921 (89466-89179)
	541-779, gnl\|panTro1\|chr21 (5089442-5089760)
	541-779, gnl\|rheMac2\|chr10 (38536985-38537301)
	541-779, gnl\|rn3\|chr3 (119973544-119973885)