Non-Coding RNA Search

Ss1.1-Pig4-TMW8048J18.3

Sequence:


               
               GTGAGAAAGCCATTGAGATCCGCTCGGTGGAGACGGGCCACCTGGACGGCGTCTTCATGC
ACAAGCGAGCCCAGAGGCTCAAGTTCCTGTGCGAGCGGAACGACAAGGTGTTTTTTGCCT
CCGTCCGCTCCGGGGGCAGCAGCCAAGTTTACTTCATGACGCTGAACCGTAACTGCATCA
TGAACTGGTGACGGGGCCCTGGGCTGGGCTGTCCCTCGGGGACCAGCTCTCCCCCACCAG
CCAGACTTCCCAGGCCGCCCTTCTCTTCCCTCCCTGGGCTTTTGCTTTTACTGGTTTGAT
TCACTGGAGCCTGCTGGGAACGTGACCTCTGACCCCTGATGCTTTTGTGATCACGTGACC
ATCCTCTTCCCCAACATGTTCTCTCCCCAAAACTGTGCCTGTCCCAACTTCTGGGGAGAG
GCACAGCCTAGCCCACCCCCCTTTCTCCACTTGGGAGGAGAGCGTTTGGGGCTTGGAGCC
CGTACCCCACTGCTGCTGACTCGGCAGGGCCCTGGGCCCCTTTATTTGCACGTCAGGGGA
GCCGGCTCCCCCCTTGAATGTACCAGACCCTGGGGGGGGTCACTGGGCCCTAGGTTTTAG
GGGGGTCACCAGCCACTCCAGGGGCAGGGACCATTTCCTCATTTTCTGAAAGCACTTTAA
TGATTCCCCTCCCCTCAAACCCCAGGGAATGGAGGGAGGACCCCGACAGCCAAAACATTG
ACCCCTTTCCGACCCCCATCTCTTCTGGCCTCTGCCCCTTCCCCGGTGGAGAGAGGGAGC
GGGGCGCTCTCACCCTCCACACGGCCCGGCCCGTGCTTGCATCTGTATATAGTGTGAGCG
GCAAGTAGCCCCGCCCCCTCCCGGTCCCTTCTCTCCTCAATGTAGTGGCCTTGGATACCT
GTTTGTTAATAAAGACAATTCAACCAGCTCCCACCAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTGAGAAAGCCATTGAGATCCGCTCGGTGGAGACGGGCCACCTGGACGGCGTCTTCATGC
ACAAGCGAGCCCAGAGGCTCAAGTTCCTGTGCGAGCGGAACGACAAGGTGTTTTTTGCCT
CCGTCCGCTCCGGGGGCAGCAGCCAAGTTTACTTCATGACGCTGAACCGTAACTGCATCA
TGAACTGGTGACGGGGCCCTGGGCTGGGCTGTCCCTCGGGGACCAGCTCTCCCCCACCAG
CCAGACTTCCCAGGCCGCCCTTCTCTTCCCTCCCTGGGCTTTTGCTTTTACTGGTTTGAT
TCACTGGAGCCTGCTGGGAACGTGACCTCTGACCCCTGATGCTTTTGTGATCACGTGACC
ATCCTCTTCCCCAACATGTTCTCTCCCCAAAACTGTGCCTGTCCCAACTTCTGGGGAGAG
GCACAGCCTAGCCCACCCCCCTTTCTCCACTTGGGAGGAGAGCGTTTGGGGCTTGGAGCC
CGTACCCCACTGCTGCTGACTCGGCAGGGCCCTGGGCCCCTTTATTTGCACGTCAGGGGA
GCCGGCTCCCCCCTTGAATGTACCAGACCCTGGGGGGGGTCACTGGGCCCTAGGTTTTAG
GGGGGTCACCAGCCACTCCAGGGGCAGGGACCATTTCCTCATTTTCTGAAAGCACTTTAA
TGATTCCCCTCCCCTCAAACCCCAGGGAATGGAGGGAGGACCCCGACAGCCAAAACATTG
ACCCCTTTCCGACCCCCATCTCTTCTGGCCTCTGCCCCTTCCCCGGTGGAGAGAGGGAGC
GGGGCGCTCTCACCCTCCACACGGCCCGGCCCGTGCTTGCATCTGTATATAGTGTGAGCG
GCAAGTAGCCCCGCCCCCTCCCGGTCCCTTCTCTCCTCAATGTAGTGGCCTTGGATACCT
GTTTGTTAATAAAGACAATTCAACCAGCTCCCACCAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAA

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

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

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               312-427, - strand, RNAz p=0.995673

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


               
               312-427, - strand, RNAz p=0.995673

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               321-427, 63213 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|AW484947.1|), 
blast E-value=0, identity=100% 
               

               
               312-427, 1438024 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT884802.1|), 
blast E-value=0, identity=95.69% 
               

               
               312-427, 1476835 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT894234.1|), 
blast E-value=0, identity=95.69% 
               

               
               312-427, 1480195 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT901028.1|), 
blast E-value=0, identity=95.69% 
               

               
               312-427, POSM0605011_J24R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV899509.1|), blast E-value=0, identity=100% 
               

               
               312-427, 001105BEMN052436HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY038881.1|), blast E-value=0, identity=95.69%

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


               
               321-427, 63213 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb|AW484947.1|), 
blast E-value=0, identity=100% 
               

               
               312-427, 1438024 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT884802.1|), 
blast E-value=0, identity=95.69% 
               

               
               312-427, 1476835 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT894234.1|), 
blast E-value=0, identity=95.69% 
               

               
               312-427, 1480195 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT901028.1|), 
blast E-value=0, identity=95.69% 
               

               
               312-427, POSM0605011_J24R porcine skeletal muscle cDNA library (PoSM) Sus 
(gb|DV899509.1|), blast E-value=0, identity=100% 
               

               
               312-427, 001105BEMN052436HT BEMN Bos taurus cDNA, mRNA sequence 
(gb|DY038881.1|), blast E-value=0, identity=95.69%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               106-427, gnl|bosTau2|chr19 (14795859-14796179)
               

               
               106-427, gnl|Hg17|chr17 (4741273-4741599)
               

               
               106-427, gnl|Mm7|chr11 (70695201-70695525)

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


               
               106-427, gnl|bosTau2|chr19 (14795859-14796179)
               

               
               106-427, gnl|Hg17|chr17 (4741273-4741599)
               

               
               106-427, gnl|Mm7|chr11 (70695201-70695525)

Expressed library(ies): 14 entry(ies)

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Expressed library(ies): 14 entry(ies)

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               amn (0.417711)
               

               
               fhi (0.339155)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               nlu (0.191681)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               csp (0.161186)
               

               
               eli (0.151814)
               

               
               lnt (0.142308)
               

               
               pla (0.133672)
               

               
               ute (0.132784)
               

               
               cov (0.132153)
               

               
               jca (0.11396)

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


               
               amn (0.417711)
               

               
               fhi (0.339155)
               

               
               fcc (0.197785)
               

               
               col (0.195008)
               

               
               nlu (0.191681)
               

               
               fbs (0.175346)
               

               
               mcp (0.170648)
               

               
               csp (0.161186)
               

               
               eli (0.151814)
               

               
               lnt (0.142308)
               

               
               pla (0.133672)
               

               
               ute (0.132784)
               

               
               cov (0.132153)
               

               
               jca (0.11396)

	321-427, 63213 MARC 3BOV Bos taurus cDNA 5', mRNA sequence (gb\|AW484947.1\|), blast E-value=0, identity=100%
	312-427, 1438024 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT884802.1\|), blast E-value=0, identity=95.69%
	312-427, 1476835 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT894234.1\|), blast E-value=0, identity=95.69%
	312-427, 1480195 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT901028.1\|), blast E-value=0, identity=95.69%
	312-427, POSM0605011_J24R porcine skeletal muscle cDNA library (PoSM) Sus (gb\|DV899509.1\|), blast E-value=0, identity=100%
	312-427, 001105BEMN052436HT BEMN Bos taurus cDNA, mRNA sequence (gb\|DY038881.1\|), blast E-value=0, identity=95.69%

	106-427, gnl\|bosTau2\|chr19 (14795859-14796179)
	106-427, gnl\|Hg17\|chr17 (4741273-4741599)
	106-427, gnl\|Mm7\|chr11 (70695201-70695525)

	amn (0.417711)
	fhi (0.339155)
	fcc (0.197785)
	col (0.195008)
	nlu (0.191681)
	fbs (0.175346)
	mcp (0.170648)
	csp (0.161186)
	eli (0.151814)
	lnt (0.142308)
	pla (0.133672)
	ute (0.132784)
	cov (0.132153)
	jca (0.11396)