Non-Coding RNA Search

Ss1.1-rnep24c_i14.5

Sequence:


               
               GTGAGAAAGCCCAGGTGACAGGGCAGCAGCACAGAGCAGGTGGATGGAGGGAGCAGAGCC
TTAGCAGTGGGAGCAAGCGGACGCCGCCACAGCACCTGCTGACCAGCCACCTAGGAGCAG
CACTGCTTCTTGCAACAGCTTTTCTGCTGGCAGCAGCTCTTCTGCTGGCAACAGCCCTTC
CCACAGCCACACGAGTTGCAGCTGCAGGTGCGGCGGTAGCAGCAGACCACGGGGGTGCTG
CAGCAGCCCCCACAGCAGCCACAGCAGCAGGGGCAGCAGCCGGAGCAGCAGCCCACCCGG
TAGCATCTGCAGCTGGTACAGCTGTTGCAGCCGCCACAGCCACCACCGCAGCCACCGCAG
CCACTGCTGCAGCCGCCACAACCACCGCTGCAGCCACCGCAGCCACCACAACTTCCACAG
CCACAGCAGCCCATGGTGTCGTTAGAGAGGACTCAGGAGAGGTGAGGAGGAGACTCAGGA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GTGAGAAAGCCCAGGTGACAGGGCAGCAGCACAGAGCAGGTGGATGGAGGGAGCAGAGCC
TTAGCAGTGGGAGCAAGCGGACGCCGCCACAGCACCTGCTGACCAGCCACCTAGGAGCAG
CACTGCTTCTTGCAACAGCTTTTCTGCTGGCAGCAGCTCTTCTGCTGGCAACAGCCCTTC
CCACAGCCACACGAGTTGCAGCTGCAGGTGCGGCGGTAGCAGCAGACCACGGGGGTGCTG
CAGCAGCCCCCACAGCAGCCACAGCAGCAGGGGCAGCAGCCGGAGCAGCAGCCCACCCGG
TAGCATCTGCAGCTGGTACAGCTGTTGCAGCCGCCACAGCCACCACCGCAGCCACCGCAG
CCACTGCTGCAGCCGCCACAACCACCGCTGCAGCCACCGCAGCCACCACAACTTCCACAG
CCACAGCAGCCCATGGTGTCGTTAGAGAGGACTCAGGAGAGGTGAGGAGGAGACTCAGGA

Coded protein: 1 entry(ies)

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Coded protein: 1 entry(ies)

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               Q9D230_MOUSE

Coded protein: 1 entry(ies)

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Protein identifier


               
               Q9D230_MOUSE

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

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

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               169-390, - strand, RNAz p=0.99898
               

               
               203-391, - strand, RNAz p=0.998455

Predicted RNA structure(s): 2 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


               
               169-390, - strand, RNAz p=0.99898
               

               
               203-391, - strand, RNAz p=0.998455

Similar Transcript(s): 9 entry(ies)

More info

Similar Transcript(s): 9 entry(ies)

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               293-239, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=2e-23, identity=100% 
               

               
               293-239, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=7e-26, identity=97.18% 
               

               
               181-234, CES003629 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF766513.1|), blast E-value=4e-18, identity=98.15% 
               

               
               184-234, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE364493.1|), 
blast E-value=3e-16, identity=98.04% 
               

               
               181-234, LB029109.CR_E07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE369023.1|), 
blast E-value=4e-18, identity=98.15% 
               

               
               184-234, LB029110.CR_D10 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE369340.1|), 
blast E-value=3e-16, identity=98.04% 
               

               
               293-364, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=3e-31, identity=100% 
               

               
               293-364, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=6e-29, identity=98.61% 
               

               
               308-379, fs988.z1 fs 103-105d fetal sheep skin library Ovis aries cDNA, mRNA 
(gb|CF118823.1|), blast E-value=0.0000000000008, identity=89.33%

Similar Transcript(s): 9 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


               
               293-239, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=2e-23, identity=100% 
               

               
               293-239, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=7e-26, identity=97.18% 
               

               
               181-234, CES003629 Bos taurus skin cDNA library Bos taurus cDNA clone 
(gb|CF766513.1|), blast E-value=4e-18, identity=98.15% 
               

               
               184-234, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE364493.1|), 
blast E-value=3e-16, identity=98.04% 
               

               
               181-234, LB029109.CR_E07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE369023.1|), 
blast E-value=4e-18, identity=98.15% 
               

               
               184-234, LB029110.CR_D10 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb|EE369340.1|), 
blast E-value=3e-16, identity=98.04% 
               

               
               293-364, DB803954 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB803954.1|), blast E-value=3e-31, identity=100% 
               

               
               293-364, DB806008 full-length enriched swine cDNA library, adult skin Sus 
(dbj|DB806008.1|), blast E-value=6e-29, identity=98.61% 
               

               
               308-379, fs988.z1 fs 103-105d fetal sheep skin library Ovis aries cDNA, mRNA 
(gb|CF118823.1|), blast E-value=0.0000000000008, identity=89.33%

Aligned organism(s): 14 entry(ies)

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Aligned organism(s): 14 entry(ies)

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               90-480, gnl|bosTau2|chr2 (69334668-69334258)
               

               
               90-480, gnl|canFam2|chr25 (43358405-43358936)
               

               
               90-480, gnl|dasNov1|scaffold_34800 (42784-42283)
               

               
               90-480, gnl|echTel1|scaffold_292063 (87584-87028)
               

               
               90-480, gnl|hg17|chr2 (228307560-228308071)
               

               
               90-480, gnl|Hg17|chr2 (228308065-228307673)
               

               
               90-480, gnl|loxAfr1|scaffold_18189 (22876-23402)
               

               
               90-480, gnl|mm7|chr1 (83168812-83169482)
               

               
               90-480, gnl|Mm7|chr1 (83169463-83168922)
               

               
               90-480, gnl|monDom2|scaffold_28 (9235278-9235827)
               

               
               90-480, gnl|oryCun1|scaffold_139433 (5633-5136)
               

               
               90-480, gnl|panTro1|chr13 (118904374-118904849)
               

               
               90-480, gnl|rheMac2|chr12 (91509838-91510343)
               

               
               90-480, gnl|rn3|chr9 (82444536-82445073)

Aligned organism(s): 14 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


               
               90-480, gnl|bosTau2|chr2 (69334668-69334258)
               

               
               90-480, gnl|canFam2|chr25 (43358405-43358936)
               

               
               90-480, gnl|dasNov1|scaffold_34800 (42784-42283)
               

               
               90-480, gnl|echTel1|scaffold_292063 (87584-87028)
               

               
               90-480, gnl|hg17|chr2 (228307560-228308071)
               

               
               90-480, gnl|Hg17|chr2 (228308065-228307673)
               

               
               90-480, gnl|loxAfr1|scaffold_18189 (22876-23402)
               

               
               90-480, gnl|mm7|chr1 (83168812-83169482)
               

               
               90-480, gnl|Mm7|chr1 (83169463-83168922)
               

               
               90-480, gnl|monDom2|scaffold_28 (9235278-9235827)
               

               
               90-480, gnl|oryCun1|scaffold_139433 (5633-5136)
               

               
               90-480, gnl|panTro1|chr13 (118904374-118904849)
               

               
               90-480, gnl|rheMac2|chr12 (91509838-91510343)
               

               
               90-480, gnl|rn3|chr9 (82444536-82445073)

Expressed library(ies): 1 entry(ies)

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Expressed library(ies): 1 entry(ies)

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               nep (0.36785)

Expressed library(ies): 1 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


               
               nep (0.36785)

	169-390, - strand, RNAz p=0.99898
	203-391, - strand, RNAz p=0.998455

	293-239, DB803954 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB803954.1\|), blast E-value=2e-23, identity=100%
	293-239, DB806008 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB806008.1\|), blast E-value=7e-26, identity=97.18%
	181-234, CES003629 Bos taurus skin cDNA library Bos taurus cDNA clone (gb\|CF766513.1\|), blast E-value=4e-18, identity=98.15%
	184-234, LB02967.CR_C16 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE364493.1\|), blast E-value=3e-16, identity=98.04%
	181-234, LB029109.CR_E07 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE369023.1\|), blast E-value=4e-18, identity=98.15%
	184-234, LB029110.CR_D10 GC_BGC-29 Bos taurus cDNA clone IMAGE (gb\|EE369340.1\|), blast E-value=3e-16, identity=98.04%
	293-364, DB803954 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB803954.1\|), blast E-value=3e-31, identity=100%
	293-364, DB806008 full-length enriched swine cDNA library, adult skin Sus (dbj\|DB806008.1\|), blast E-value=6e-29, identity=98.61%
	308-379, fs988.z1 fs 103-105d fetal sheep skin library Ovis aries cDNA, mRNA (gb\|CF118823.1\|), blast E-value=0.0000000000008, identity=89.33%

	90-480, gnl\|bosTau2\|chr2 (69334668-69334258)
	90-480, gnl\|canFam2\|chr25 (43358405-43358936)
	90-480, gnl\|dasNov1\|scaffold_34800 (42784-42283)
	90-480, gnl\|echTel1\|scaffold_292063 (87584-87028)
	90-480, gnl\|hg17\|chr2 (228307560-228308071)
	90-480, gnl\|Hg17\|chr2 (228308065-228307673)
	90-480, gnl\|loxAfr1\|scaffold_18189 (22876-23402)
	90-480, gnl\|mm7\|chr1 (83168812-83169482)
	90-480, gnl\|Mm7\|chr1 (83169463-83168922)
	90-480, gnl\|monDom2\|scaffold_28 (9235278-9235827)
	90-480, gnl\|oryCun1\|scaffold_139433 (5633-5136)
	90-480, gnl\|panTro1\|chr13 (118904374-118904849)
	90-480, gnl\|rheMac2\|chr12 (91509838-91510343)
	90-480, gnl\|rn3\|chr9 (82444536-82445073)