Non-Coding RNA Search

Ss1.1-Pig4-TMW8036N08.5

Sequence:


               
               GGCATATGATTTCTCATTTATCTGCTGGTGAGACTATATGCCAGGTCTGCTTTCAGATAT
TCCCAAATAATGAACAGTTGGAACAGCACATGGATGTTCATCTGTATACATGTGGAATAT
GTGGAGCAAAGTTTAATTTGAGGAAAGATATGAGATCACATTATAATGCCAAGCATTTGA
AAAGAACATAAGTGATTTTCTACTGTATAATGTTTAGTTGATAGCAGACAAAACACCAAA
GCAAAGGATATGAGCTATTTAGAAAGTGATTTTATAAGCTGAAGTGTTGAAAAAAAATTC
CAAGTCCCTTTTATCTTTAATATTTTTGTTTAGGATATTAAGTATCTACATTTTAGGTGA
TATTAAATGTCTATCATTTTTGTTATTTCTTAATAGAATTCTTTGTTTTTAGTTTGTTTT
AGCTATGATTAAAATTACTTTTAAATGTAGACTGCAAGTGGTTTTTACCCCTTCGATGAC
TATTAAAGTTTAGTTTTCTTATCAATAAGGTGATGACTTCACTATTTTTATGTGGGGTTT
TTTGTTTTTGTTTTTTTGGTTAAGGTTACCCTCTGAAATTTAAAACCCGACATTGGCCAT
TTCTGTTTAAGAAAAAGTTTTTTTAAGTAATTAGTTATTTGAAACTCTCATTAACTCTAG
CTTTTTTTTTTTTTGCAAGTTGAACAGTGATTTAGCCACTGTTTATTTCCCTTTCTTATC
AATGAAATTCATATTCTTAAATTGACAACTTATTAGGCAGGTTAGGTGCACTGAATCTAA
CCTTGAAGGTTGACATGGGCTCAAACTTGGCCTAAAAAGATGGATGGACCTAAGGAAATG
ACTATAAATGAATATTTCCTATAATTGATAAAATATTATCATTTAATAATCACATTTAAA
ACTTATATTAAGTGTAAAACCCAATGACTTTACCCCACTTGAGAAATTAGTGGGGACAAG
TCATTTTGTTTTGTGATATTAAATTTAACTATGATAGTTAATTAAAAAGGCATATCTTGT
ATTCATTTAAAATAATTTAAAATATTCTGATTTCTAAAGTGTGTTAGTTTATCAATTATT
TTGTTTATAAATAGACTTTAATTGTCTCTAGGAATATGACATCTAAAGGAAAGTGATTTT
TCATCTTTAAAATGACATACTTTTGGAACTTTGAGATTTGAGAAAGCTGCCATGTATATT
GATAAATCTAATAAAATAAAGAAATCAATTACAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GGCATATGATTTCTCATTTATCTGCTGGTGAGACTATATGCCAGGTCTGCTTTCAGATAT
TCCCAAATAATGAACAGTTGGAACAGCACATGGATGTTCATCTGTATACATGTGGAATAT
GTGGAGCAAAGTTTAATTTGAGGAAAGATATGAGATCACATTATAATGCCAAGCATTTGA
AAAGAACATAAGTGATTTTCTACTGTATAATGTTTAGTTGATAGCAGACAAAACACCAAA
GCAAAGGATATGAGCTATTTAGAAAGTGATTTTATAAGCTGAAGTGTTGAAAAAAAATTC
CAAGTCCCTTTTATCTTTAATATTTTTGTTTAGGATATTAAGTATCTACATTTTAGGTGA
TATTAAATGTCTATCATTTTTGTTATTTCTTAATAGAATTCTTTGTTTTTAGTTTGTTTT
AGCTATGATTAAAATTACTTTTAAATGTAGACTGCAAGTGGTTTTTACCCCTTCGATGAC
TATTAAAGTTTAGTTTTCTTATCAATAAGGTGATGACTTCACTATTTTTATGTGGGGTTT
TTTGTTTTTGTTTTTTTGGTTAAGGTTACCCTCTGAAATTTAAAACCCGACATTGGCCAT
TTCTGTTTAAGAAAAAGTTTTTTTAAGTAATTAGTTATTTGAAACTCTCATTAACTCTAG
CTTTTTTTTTTTTTGCAAGTTGAACAGTGATTTAGCCACTGTTTATTTCCCTTTCTTATC
AATGAAATTCATATTCTTAAATTGACAACTTATTAGGCAGGTTAGGTGCACTGAATCTAA
CCTTGAAGGTTGACATGGGCTCAAACTTGGCCTAAAAAGATGGATGGACCTAAGGAAATG
ACTATAAATGAATATTTCCTATAATTGATAAAATATTATCATTTAATAATCACATTTAAA
ACTTATATTAAGTGTAAAACCCAATGACTTTACCCCACTTGAGAAATTAGTGGGGACAAG
TCATTTTGTTTTGTGATATTAAATTTAACTATGATAGTTAATTAAAAAGGCATATCTTGT
ATTCATTTAAAATAATTTAAAATATTCTGATTTCTAAAGTGTGTTAGTTTATCAATTATT
TTGTTTATAAATAGACTTTAATTGTCTCTAGGAATATGACATCTAAAGGAAAGTGATTTT
TCATCTTTAAAATGACATACTTTTGGAACTTTGAGATTTGAGAAAGCTGCCATGTATATT
GATAAATCTAATAAAATAAAGAAATCAATTACAAAA

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

More info

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

Help | Less info


               
               1-119, + strand, RNAz p=0.808138
               

               
               764-1002, - strand, RNAz p=0.997252

Predicted RNA structure(s): 2 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


               
               1-119, + strand, RNAz p=0.808138
               

               
               764-1002, - strand, RNAz p=0.997252

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               771-1002, AJ817670 KN206 Bos sp. cDNA clone C0006005l04, mRNA sequence 
(emb|AJ817670.1|), blast E-value=0, identity=97% 
               

               
               771-1002, AM029884 KN-252-lymph, Bos indicus Bos indicus cDNA clone 
(emb|AM029884.1|), blast E-value=0, identity=97% 
               

               
               764-1002, CH3#029_A01T3 Canine heart normalized cDNA Library in pBluescript 
(gb|BU749787.1|), blast E-value=0, identity=97.07% 
               

               
               771-1002, 594618 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB421590.1|), 
blast E-value=0, identity=97% 
               

               
               771-1002, 4098973 BARC 10BOV Bos taurus cDNA clone 10BOV5_E12 3', mRNA 
(gb|CK958580.1|), blast E-value=0, identity=97% 
               

               
               771-1002, LB029108.CR_B03 GC_BGC-29 Bos taurus cDNA clone IMAGE 
(gb|EE368614.1|), blast E-value=0, identity=97%

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


               
               771-1002, AJ817670 KN206 Bos sp. cDNA clone C0006005l04, mRNA sequence 
(emb|AJ817670.1|), blast E-value=0, identity=97% 
               

               
               771-1002, AM029884 KN-252-lymph, Bos indicus Bos indicus cDNA clone 
(emb|AM029884.1|), blast E-value=0, identity=97% 
               

               
               764-1002, CH3#029_A01T3 Canine heart normalized cDNA Library in pBluescript 
(gb|BU749787.1|), blast E-value=0, identity=97.07% 
               

               
               771-1002, 594618 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb|CB421590.1|), 
blast E-value=0, identity=97% 
               

               
               771-1002, 4098973 BARC 10BOV Bos taurus cDNA clone 10BOV5_E12 3', mRNA 
(gb|CK958580.1|), blast E-value=0, identity=97% 
               

               
               771-1002, LB029108.CR_B03 GC_BGC-29 Bos taurus cDNA clone IMAGE 
(gb|EE368614.1|), blast E-value=0, identity=97%

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

Help | Less info


               
               1-1235, gnl|bosTau2|chr10 (51586395-51585156)
               

               
               1-1235, gnl|Hg17|chr14 (64059927-64061117)
               

               
               1-1235, gnl|Mm7|chr12 (74345379-74346641)

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


               
               1-1235, gnl|bosTau2|chr10 (51586395-51585156)
               

               
               1-1235, gnl|Hg17|chr14 (64059927-64061117)
               

               
               1-1235, gnl|Mm7|chr12 (74345379-74346641)

Expressed library(ies): 4 entry(ies)

More info

Expressed library(ies): 4 entry(ies)

Help | Less info


               
               eye (0.170503)
               

               
               bla (0.124347)
               

               
               cbl (0.114797)
               

               
               cty (0.10408)

Expressed library(ies): 4 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


               
               eye (0.170503)
               

               
               bla (0.124347)
               

               
               cbl (0.114797)
               

               
               cty (0.10408)

	1-119, + strand, RNAz p=0.808138
	764-1002, - strand, RNAz p=0.997252

	771-1002, AJ817670 KN206 Bos sp. cDNA clone C0006005l04, mRNA sequence (emb\|AJ817670.1\|), blast E-value=0, identity=97%
	771-1002, AM029884 KN-252-lymph, Bos indicus Bos indicus cDNA clone (emb\|AM029884.1\|), blast E-value=0, identity=97%
	764-1002, CH3#029_A01T3 Canine heart normalized cDNA Library in pBluescript (gb\|BU749787.1\|), blast E-value=0, identity=97.07%
	771-1002, 594618 MARC 6BOV Bos taurus cDNA 3', mRNA sequence (gb\|CB421590.1\|), blast E-value=0, identity=97%
	771-1002, 4098973 BARC 10BOV Bos taurus cDNA clone 10BOV5_E12 3', mRNA (gb\|CK958580.1\|), blast E-value=0, identity=97%
	771-1002, LB029108.CR_B03 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE368614.1\|), blast E-value=0, identity=97%

	1-1235, gnl\|bosTau2\|chr10 (51586395-51585156)
	1-1235, gnl\|Hg17\|chr14 (64059927-64061117)
	1-1235, gnl\|Mm7\|chr12 (74345379-74346641)