Non-Coding RNA Search

Ss1.1-Mixg-0006g12.3

Sequence:


               
               AGTCTGGGGGAGGGGTCCCAGGTGGCTACCATCATCTGGATCCAGTGTAGGAGGAAGTTT
CTTTTCTCCCTTCTGCTCCCCCAGGTGATCCCACCACCACCACTCACTGGGGGTAACGCG
GCAGTGACTGCCCTGACCTTGGGCAGTCCAGTGTTTTGGGGTTCTGGTCCCTGCTGTGCT
GCATGACTTTGGGCAAGTGACCTACCCTCTCTGAGCCTCCCTCTGAAGCAGAGGAGGTGG
CTCCCTTCCCCCACACATTGGAGTGGCTGGGAGGGTAAGGAAGAGGGCCTGCCCCCCTTT
TATCCCTTGCACCCTTGCCTCCCTGATTCTCCAGGGGGACAGGGTGAGGGATGGCAGCAC
CTCACCTGCCCCATCACTGTCACCCCCAGCTCTGAGGCACCTGAGGTGAGGGTGAGGGAC
CCAGGCCTCGGGCTGCCCCGTGTGGGAGCCATTGGAATGTATTGCCTGGCCAGCCCCCCT
CGCCCGCCCCAACCCCCGCTTTACCCCAGATCTTTGATTTTGATTCCTTCTGCCCCCATT
CTGAGTCTCTGTCCTTCTCCCGCCCCCCCCCCAGGGTTTCCCACCACAGGGTCTGGAAGC
GTGTGTGACACCCATTGCGCTGTGATCGGAAGTCAGATTAAAAATCAGGGAGTGTTTTCC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               AGTCTGGGGGAGGGGTCCCAGGTGGCTACCATCATCTGGATCCAGTGTAGGAGGAAGTTT
CTTTTCTCCCTTCTGCTCCCCCAGGTGATCCCACCACCACCACTCACTGGGGGTAACGCG
GCAGTGACTGCCCTGACCTTGGGCAGTCCAGTGTTTTGGGGTTCTGGTCCCTGCTGTGCT
GCATGACTTTGGGCAAGTGACCTACCCTCTCTGAGCCTCCCTCTGAAGCAGAGGAGGTGG
CTCCCTTCCCCCACACATTGGAGTGGCTGGGAGGGTAAGGAAGAGGGCCTGCCCCCCTTT
TATCCCTTGCACCCTTGCCTCCCTGATTCTCCAGGGGGACAGGGTGAGGGATGGCAGCAC
CTCACCTGCCCCATCACTGTCACCCCCAGCTCTGAGGCACCTGAGGTGAGGGTGAGGGAC
CCAGGCCTCGGGCTGCCCCGTGTGGGAGCCATTGGAATGTATTGCCTGGCCAGCCCCCCT
CGCCCGCCCCAACCCCCGCTTTACCCCAGATCTTTGATTTTGATTCCTTCTGCCCCCATT
CTGAGTCTCTGTCCTTCTCCCGCCCCCCCCCCAGGGTTTCCCACCACAGGGTCTGGAAGC
GTGTGTGACACCCATTGCGCTGTGATCGGAAGTCAGATTAAAAATCAGGGAGTGTTTTCC

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

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

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               1-429, + strand, RNAz p=0.999832
               

               
               6-369, - strand, RNAz p=0.972345

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


               
               1-429, + strand, RNAz p=0.999832
               

               
               6-369, - strand, RNAz p=0.972345

Predicted microRNA(s): 3 entry(ies)

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Predicted microRNA(s): 3 entry(ies)

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               273-497, + strand, RNAmicro p=0.999698
               

               
               298-375, - strand, RNAmicro p=0.958491
               

               
               326-442, + strand, RNAmicro p=0.95123

Predicted microRNA(s): 3 entry(ies)

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PigEST conread start position and end position of the predicted microRNA,
PigEST conread reading direction of prediction,
miRNA classificator p of RNAmicro


               
               273-497, + strand, RNAmicro p=0.999698
               

               
               298-375, - strand, RNAmicro p=0.958491
               

               
               326-442, + strand, RNAmicro p=0.95123

Similar Transcript(s): 12 entry(ies)

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Similar Transcript(s): 12 entry(ies)

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               124-429, BovGen_05029 normal cattle brain Bos taurus cDNA clone 
(gb|CO876704.1|), blast E-value=0, identity=86.6% 
               

               
               159-429, BovGen_19975 normal cattle brain Bos taurus cDNA clone 
(gb|CO891650.1|), blast E-value=0, identity=87.45% 
               

               
               124-371, 1161056 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN279985.1|), 
blast E-value=0, identity=88.31% 
               

               
               124-296, 1162208 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN281050.1|), 
blast E-value=0, identity=91.91% 
               

               
               121-429, GL-Cf-3554 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN746762.1|), blast E-value=0, identity=87.26% 
               

               
               124-429, 1459004 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT896862.1|), 
blast E-value=0, identity=86.27% 
               

               
               124-288, 460898 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI681491.1|), 
blast E-value=0, identity=92.12% 
               

               
               124-369, BovGen_05029 normal cattle brain Bos taurus cDNA clone 
(gb|CO876704.1|), blast E-value=0, identity=88.21% 
               

               
               159-369, BovGen_19975 normal cattle brain Bos taurus cDNA clone 
(gb|CO891650.1|), blast E-value=0, identity=89.57% 
               

               
               124-369, 1161056 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN279985.1|), 
blast E-value=0, identity=88.21% 
               

               
               124-296, 1162208 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN281050.1|), 
blast E-value=0, identity=91.91% 
               

               
               121-369, GL-Cf-3554 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN746762.1|), blast E-value=0, identity=86.96%

Similar Transcript(s): 12 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


               
               124-429, BovGen_05029 normal cattle brain Bos taurus cDNA clone 
(gb|CO876704.1|), blast E-value=0, identity=86.6% 
               

               
               159-429, BovGen_19975 normal cattle brain Bos taurus cDNA clone 
(gb|CO891650.1|), blast E-value=0, identity=87.45% 
               

               
               124-371, 1161056 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN279985.1|), 
blast E-value=0, identity=88.31% 
               

               
               124-296, 1162208 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN281050.1|), 
blast E-value=0, identity=91.91% 
               

               
               121-429, GL-Cf-3554 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN746762.1|), blast E-value=0, identity=87.26% 
               

               
               124-429, 1459004 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DT896862.1|), 
blast E-value=0, identity=86.27% 
               

               
               124-288, 460898 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb|BI681491.1|), 
blast E-value=0, identity=92.12% 
               

               
               124-369, BovGen_05029 normal cattle brain Bos taurus cDNA clone 
(gb|CO876704.1|), blast E-value=0, identity=88.21% 
               

               
               159-369, BovGen_19975 normal cattle brain Bos taurus cDNA clone 
(gb|CO891650.1|), blast E-value=0, identity=89.57% 
               

               
               124-369, 1161056 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DN279985.1|), 
blast E-value=0, identity=88.21% 
               

               
               124-296, 1162208 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb|DN281050.1|), 
blast E-value=0, identity=91.91% 
               

               
               121-369, GL-Cf-3554 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue 
(gb|DN746762.1|), blast E-value=0, identity=86.96%

Homologous human UTR: 1 entry(ies)

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Homologous human UTR: 1 entry(ies)

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               3' of NM_033315, +

Homologous human UTR: 1 entry(ies)

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Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_033315, +

Aligned organism(s): 13 entry(ies)

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Aligned organism(s): 13 entry(ies)

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               1-660, gnl|bosTau2|chr19 (8007687-8007025)
               

               
               1-660, gnl|canFam2|chr9 (41250018-41249153)
               

               
               1-660, gnl|dasNov1|scaffold_9974 (44297-45105)
               

               
               1-660, gnl|hg17|chr17 (31093973-31094797)
               

               
               1-660, gnl|Hg17|chr17 (31093998-31094641)
               

               
               1-660, gnl|loxAfr1|scaffold_5788 (74976-75782)
               

               
               1-660, gnl|mm7|chr11 (83490280-83491105)
               

               
               1-660, gnl|Mm7|chr11 (83490304-83490932)
               

               
               1-660, gnl|monDom2|scaffold_44 (7197596-7196758)
               

               
               1-660, gnl|oryCun1|scaffold_182104 (25043-25802)
               

               
               1-660, gnl|panTro1|chr19 (34619035-34619859)
               

               
               1-660, gnl|rheMac2|chr16 (31012245-31013069)
               

               
               1-660, gnl|rn3|chr10 (71518993-71519811)

Aligned organism(s): 13 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


               
               1-660, gnl|bosTau2|chr19 (8007687-8007025)
               

               
               1-660, gnl|canFam2|chr9 (41250018-41249153)
               

               
               1-660, gnl|dasNov1|scaffold_9974 (44297-45105)
               

               
               1-660, gnl|hg17|chr17 (31093973-31094797)
               

               
               1-660, gnl|Hg17|chr17 (31093998-31094641)
               

               
               1-660, gnl|loxAfr1|scaffold_5788 (74976-75782)
               

               
               1-660, gnl|mm7|chr11 (83490280-83491105)
               

               
               1-660, gnl|Mm7|chr11 (83490304-83490932)
               

               
               1-660, gnl|monDom2|scaffold_44 (7197596-7196758)
               

               
               1-660, gnl|oryCun1|scaffold_182104 (25043-25802)
               

               
               1-660, gnl|panTro1|chr19 (34619035-34619859)
               

               
               1-660, gnl|rheMac2|chr16 (31012245-31013069)
               

               
               1-660, gnl|rn3|chr10 (71518993-71519811)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               ece (0.229305)
               

               
               fhi (0.169578)

Expressed library(ies): 2 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


               
               ece (0.229305)
               

               
               fhi (0.169578)

	1-429, + strand, RNAz p=0.999832
	6-369, - strand, RNAz p=0.972345

	273-497, + strand, RNAmicro p=0.999698
	298-375, - strand, RNAmicro p=0.958491
	326-442, + strand, RNAmicro p=0.95123

	124-429, BovGen_05029 normal cattle brain Bos taurus cDNA clone (gb\|CO876704.1\|), blast E-value=0, identity=86.6%
	159-429, BovGen_19975 normal cattle brain Bos taurus cDNA clone (gb\|CO891650.1\|), blast E-value=0, identity=87.45%
	124-371, 1161056 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN279985.1\|), blast E-value=0, identity=88.31%
	124-296, 1162208 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN281050.1\|), blast E-value=0, identity=91.91%
	121-429, GL-Cf-3554 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN746762.1\|), blast E-value=0, identity=87.26%
	124-429, 1459004 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DT896862.1\|), blast E-value=0, identity=86.27%
	124-288, 460898 MARC 1BOV Bos taurus cDNA 5', mRNA sequence (gb\|BI681491.1\|), blast E-value=0, identity=92.12%
	124-369, BovGen_05029 normal cattle brain Bos taurus cDNA clone (gb\|CO876704.1\|), blast E-value=0, identity=88.21%
	159-369, BovGen_19975 normal cattle brain Bos taurus cDNA clone (gb\|CO891650.1\|), blast E-value=0, identity=89.57%
	124-369, 1161056 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DN279985.1\|), blast E-value=0, identity=88.21%
	124-296, 1162208 MARC 7BOV Bos taurus cDNA 5', mRNA sequence (gb\|DN281050.1\|), blast E-value=0, identity=91.91%
	121-369, GL-Cf-3554 GLGC-LIB0001-cf Canis familiaris Normalized Mixed Tissue (gb\|DN746762.1\|), blast E-value=0, identity=86.96%

	1-660, gnl\|bosTau2\|chr19 (8007687-8007025)
	1-660, gnl\|canFam2\|chr9 (41250018-41249153)
	1-660, gnl\|dasNov1\|scaffold_9974 (44297-45105)
	1-660, gnl\|hg17\|chr17 (31093973-31094797)
	1-660, gnl\|Hg17\|chr17 (31093998-31094641)
	1-660, gnl\|loxAfr1\|scaffold_5788 (74976-75782)
	1-660, gnl\|mm7\|chr11 (83490280-83491105)
	1-660, gnl\|Mm7\|chr11 (83490304-83490932)
	1-660, gnl\|monDom2\|scaffold_44 (7197596-7196758)
	1-660, gnl\|oryCun1\|scaffold_182104 (25043-25802)
	1-660, gnl\|panTro1\|chr19 (34619035-34619859)
	1-660, gnl\|rheMac2\|chr16 (31012245-31013069)
	1-660, gnl\|rn3\|chr10 (71518993-71519811)