Non-Coding RNA Search

Ss1.1-Pig4-TMW8053N08.3

Sequence:


               
               CTTTGGGCTCATGGAGAAGGACTCGTACCCACGCTTCCTCCGCTCTGACCTCTACCTGGA
CCTCATTAACCAGAAGAAGATGAGTCCCCCGCTTTAGGGGCCACGGGGGTGGAGCTCAGC
GTTCACACCAGGCGGGCTGGGTGCCTCCCCACTGCCTCCCTCTCCCCGCGACAGGGGGGC
AAGCAAGCCCGGAAGGCTGTGTCCGGACAGACAGACGGACATTTGGATGAGAGGCCTGGA
CCAAGAGAGGCCCAGGCCACTGGAGGAGTAGAGGGACTGGCCCCAGTGGGTCCCCACTGC
CCTGGTACGAGGGGGCCCGAGGGCCCTGGCAGGTCAGGGGCCCTGGCTGAGCCAGATCCG
GAGCTGCTGCTCCCGGATGTGGAGACTCTTGCAATGACCAAGTTCCTTAAAGAACTGGCT
GATGGGGCAGGGGCTCAGGCCTGGGCTCCGGGGCTCTCCAGGGGGGCCGCCGGGGCTCTC
AGCTCAGACCCCTGCCTTGAGTTTTATTTATTTAAACAGTAGCTGGATGCTTGGCACGTC
GTCCTGTACTAGGAAACCTTTTGCCTCATCAGTTTTCCTAATTTCCAAGTGCAATATTTT
AACCAACGCCTTGTGAAAAGCCACCTCGCAGAGAAGGTGGACACCATTTCCGGTTTCAGG
GGATTCACTGGTCCCAAGCCCCAGTGGCGGGCAGCTGGGACTGCTGGACTGACAAGGCCC
GGAGGGGTGGGGGCCGCAGTCTGACCTCACACCGAAATCCAGCACCCCTGAGTGAGGGCC
CCCCGGGGGCTCCAGGGAAGCATGGCACCCTCAGACCAGACAGCGGCCGAGTTCTGGAGC
AAATAAAAGGCCTGTGTTATTTTTAAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CTTTGGGCTCATGGAGAAGGACTCGTACCCACGCTTCCTCCGCTCTGACCTCTACCTGGA
CCTCATTAACCAGAAGAAGATGAGTCCCCCGCTTTAGGGGCCACGGGGGTGGAGCTCAGC
GTTCACACCAGGCGGGCTGGGTGCCTCCCCACTGCCTCCCTCTCCCCGCGACAGGGGGGC
AAGCAAGCCCGGAAGGCTGTGTCCGGACAGACAGACGGACATTTGGATGAGAGGCCTGGA
CCAAGAGAGGCCCAGGCCACTGGAGGAGTAGAGGGACTGGCCCCAGTGGGTCCCCACTGC
CCTGGTACGAGGGGGCCCGAGGGCCCTGGCAGGTCAGGGGCCCTGGCTGAGCCAGATCCG
GAGCTGCTGCTCCCGGATGTGGAGACTCTTGCAATGACCAAGTTCCTTAAAGAACTGGCT
GATGGGGCAGGGGCTCAGGCCTGGGCTCCGGGGCTCTCCAGGGGGGCCGCCGGGGCTCTC
AGCTCAGACCCCTGCCTTGAGTTTTATTTATTTAAACAGTAGCTGGATGCTTGGCACGTC
GTCCTGTACTAGGAAACCTTTTGCCTCATCAGTTTTCCTAATTTCCAAGTGCAATATTTT
AACCAACGCCTTGTGAAAAGCCACCTCGCAGAGAAGGTGGACACCATTTCCGGTTTCAGG
GGATTCACTGGTCCCAAGCCCCAGTGGCGGGCAGCTGGGACTGCTGGACTGACAAGGCCC
GGAGGGGTGGGGGCCGCAGTCTGACCTCACACCGAAATCCAGCACCCCTGAGTGAGGGCC
CCCCGGGGGCTCCAGGGAAGCATGGCACCCTCAGACCAGACAGCGGCCGAGTTCTGGAGC
AAATAAAAGGCCTGTGTTATTTTTAAAAAAAAAAAA

Predicted RNA structure(s): 1 entry(ies)

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Predicted RNA structure(s): 1 entry(ies)

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               80-528, + strand, RNAz p=0.997185

Predicted RNA structure(s): 1 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


               
               80-528, + strand, RNAz p=0.997185

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               80-528, CJ038482 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|CJ038482.1|), blast E-value=0, identity=99.78% 
               

               
               80-390, DB789296 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB789296.1|), blast E-value=0, identity=100% 
               

               
               99-528, DB813244 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813244.1|), blast E-value=0, identity=99.77% 
               

               
               171-528, DB817814 full-length enriched swine cDNA library, adult testis Sus 
(dbj|DB817814.1|), blast E-value=0, identity=100% 
               

               
               80-528, 1158148 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN278810.1|), 
blast E-value=0, identity=90.51% 
               

               
               80-528, LB0305.CR_I21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV933935.1|), 
blast E-value=0, identity=90.73%

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


               
               80-528, CJ038482 full-length enriched swine cDNA library, adult uterus Sus 
(dbj|CJ038482.1|), blast E-value=0, identity=99.78% 
               

               
               80-390, DB789296 full-length enriched swine cDNA library, adult adrenal 
(dbj|DB789296.1|), blast E-value=0, identity=100% 
               

               
               99-528, DB813244 full-length enriched swine cDNA library, adult ovary Sus 
(dbj|DB813244.1|), blast E-value=0, identity=99.77% 
               

               
               171-528, DB817814 full-length enriched swine cDNA library, adult testis Sus 
(dbj|DB817814.1|), blast E-value=0, identity=100% 
               

               
               80-528, 1158148 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN278810.1|), 
blast E-value=0, identity=90.51% 
               

               
               80-528, LB0305.CR_I21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb|DV933935.1|), 
blast E-value=0, identity=90.73%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of BC019039, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of BC019039, +

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-864, gnl|bosTau2|chr8 (52652338-52651467)
               

               
               1-864, gnl|Hg17|chr9 (113438691-113439563)
               

               
               1-864, gnl|Mm7|chr4 (62135845-62136706)

Aligned organism(s): 3 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


               
               1-864, gnl|bosTau2|chr8 (52652338-52651467)
               

               
               1-864, gnl|Hg17|chr9 (113438691-113439563)
               

               
               1-864, gnl|Mm7|chr4 (62135845-62136706)

Expressed library(ies): 6 entry(ies)

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Expressed library(ies): 6 entry(ies)

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               eye (0.170503)
               

               
               fhi (0.169578)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)
               

               
               pla (0.133672)
               

               
               eru (0.120048)

Expressed library(ies): 6 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


               
               eye (0.170503)
               

               
               fhi (0.169578)
               

               
               cag (0.151194)
               

               
               lnt (0.142308)
               

               
               pla (0.133672)
               

               
               eru (0.120048)

	80-528, CJ038482 full-length enriched swine cDNA library, adult uterus Sus (dbj\|CJ038482.1\|), blast E-value=0, identity=99.78%
	80-390, DB789296 full-length enriched swine cDNA library, adult adrenal (dbj\|DB789296.1\|), blast E-value=0, identity=100%
	99-528, DB813244 full-length enriched swine cDNA library, adult ovary Sus (dbj\|DB813244.1\|), blast E-value=0, identity=99.77%
	171-528, DB817814 full-length enriched swine cDNA library, adult testis Sus (dbj\|DB817814.1\|), blast E-value=0, identity=100%
	80-528, 1158148 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN278810.1\|), blast E-value=0, identity=90.51%
	80-528, LB0305.CR_I21 GC_BGC-30 Bos taurus cDNA clone IMAGE (gb\|DV933935.1\|), blast E-value=0, identity=90.73%

	1-864, gnl\|bosTau2\|chr8 (52652338-52651467)
	1-864, gnl\|Hg17\|chr9 (113438691-113439563)
	1-864, gnl\|Mm7\|chr4 (62135845-62136706)

	eye (0.170503)
	fhi (0.169578)
	cag (0.151194)
	lnt (0.142308)
	pla (0.133672)
	eru (0.120048)