Non-Coding RNA Search

Ss1.1-Pig3-SRG8019E22.3

Sequence:


               
               CCCCCTCCCCTTCCAGGATGGCTATGCTAACGGCTCCACTTGGGGTTTCAAAAAGTATAA
CTTATGGACCAGTGGGGTTTCAAACCCATTAATGACTCTCTGTAGAGACCCCCACACGTC
TGTGGGGGTCTCTATAGATTATGTATGTGCTGTGTGTAATTTTAAATTTCTCTATCCGTG
CTGTACAAATGTGTGGATTTGTAATCAGGCTATTTTTTGTTGTTGTTCAGAGCCATTAAT
ATAATATTTAAAGTTGAGTTCACTGGATAATTTCTCATCTTGCCCGACCATTTCTAACTG
CCAAAGAGAAAATTCAAGAAACCTTTGGGGGGGTTTTCCCCCCTGTACAATTACGATATA
ATTCTTTTCCCAGTTGTAGGTCTTCTACAAAACAAGAACATAATTTATTGTTTGTTGTTG
TTGGCAGATAAAGAAGTCAAGTATCTGATACTTTTTACTTACAAAGCGAGATGGTGTTGT
ATAGTCGAGTCCTCCCCCGAGCAT

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCCCCTCCCCTTCCAGGATGGCTATGCTAACGGCTCCACTTGGGGTTTCAAAAAGTATAA
CTTATGGACCAGTGGGGTTTCAAACCCATTAATGACTCTCTGTAGAGACCCCCACACGTC
TGTGGGGGTCTCTATAGATTATGTATGTGCTGTGTGTAATTTTAAATTTCTCTATCCGTG
CTGTACAAATGTGTGGATTTGTAATCAGGCTATTTTTTGTTGTTGTTCAGAGCCATTAAT
ATAATATTTAAAGTTGAGTTCACTGGATAATTTCTCATCTTGCCCGACCATTTCTAACTG
CCAAAGAGAAAATTCAAGAAACCTTTGGGGGGGTTTTCCCCCCTGTACAATTACGATATA
ATTCTTTTCCCAGTTGTAGGTCTTCTACAAAACAAGAACATAATTTATTGTTTGTTGTTG
TTGGCAGATAAAGAAGTCAAGTATCTGATACTTTTTACTTACAAAGCGAGATGGTGTTGT
ATAGTCGAGTCCTCCCCCGAGCAT

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

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

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               40-198, + strand, RNAz p=0.999992

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


               
               40-198, + strand, RNAz p=0.999992

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               123-198, DB356047 HEMBA1 Homo sapiens cDNA clone HEMBA1002752 3', mRNA 
(dbj|DB356047.1|), blast E-value=3e-24, identity=94.74% 
               

               
               123-198, DB357965 HEMBA1 Homo sapiens cDNA clone HEMBA1006058 3', mRNA 
(dbj|DB357965.1|), blast E-value=3e-24, identity=94.74% 
               

               
               123-198, NISC_nb09b08.x1 COGENE 6E MAN Homo sapiens cDNA clone IMAGE 
(gb|CB218522.1|), blast E-value=3e-24, identity=94.74% 
               

               
               123-198, NISC_nb09b08.y1 COGENE 6E MAN Homo sapiens cDNA clone IMAGE 
(gb|CB218523.1|), blast E-value=3e-24, identity=94.74% 
               

               
               84-198, BE030010B10E11 BE03 Normalized and Subtracted bovine embryonic and 
(gb|CN435463.1|), blast E-value=2e-40, identity=93.91% 
               

               
               129-198, 1429739 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DR113642.1|), 
blast E-value=2e-25, identity=97.14%

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


               
               123-198, DB356047 HEMBA1 Homo sapiens cDNA clone HEMBA1002752 3', mRNA 
(dbj|DB356047.1|), blast E-value=3e-24, identity=94.74% 
               

               
               123-198, DB357965 HEMBA1 Homo sapiens cDNA clone HEMBA1006058 3', mRNA 
(dbj|DB357965.1|), blast E-value=3e-24, identity=94.74% 
               

               
               123-198, NISC_nb09b08.x1 COGENE 6E MAN Homo sapiens cDNA clone IMAGE 
(gb|CB218522.1|), blast E-value=3e-24, identity=94.74% 
               

               
               123-198, NISC_nb09b08.y1 COGENE 6E MAN Homo sapiens cDNA clone IMAGE 
(gb|CB218523.1|), blast E-value=3e-24, identity=94.74% 
               

               
               84-198, BE030010B10E11 BE03 Normalized and Subtracted bovine embryonic and 
(gb|CN435463.1|), blast E-value=2e-40, identity=93.91% 
               

               
               129-198, 1429739 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DR113642.1|), 
blast E-value=2e-25, identity=97.14%

Aligned organism(s): 3 entry(ies)

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Aligned organism(s): 3 entry(ies)

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               1-504, gnl|bosTau2|chr18 (9520820-9521325)
               

               
               1-504, gnl|Hg17|chr16 (85160221-85160717)
               

               
               1-504, gnl|Mm7|chr8 (119751478-119751933)

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


               
               1-504, gnl|bosTau2|chr18 (9520820-9521325)
               

               
               1-504, gnl|Hg17|chr16 (85160221-85160717)
               

               
               1-504, gnl|Mm7|chr8 (119751478-119751933)

Expressed library(ies): 2 entry(ies)

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Expressed library(ies): 2 entry(ies)

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               fco (0.157208)
               

               
               eru (0.120048)

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


               
               fco (0.157208)
               

               
               eru (0.120048)

	123-198, DB356047 HEMBA1 Homo sapiens cDNA clone HEMBA1002752 3', mRNA (dbj\|DB356047.1\|), blast E-value=3e-24, identity=94.74%
	123-198, DB357965 HEMBA1 Homo sapiens cDNA clone HEMBA1006058 3', mRNA (dbj\|DB357965.1\|), blast E-value=3e-24, identity=94.74%
	123-198, NISC_nb09b08.x1 COGENE 6E MAN Homo sapiens cDNA clone IMAGE (gb\|CB218522.1\|), blast E-value=3e-24, identity=94.74%
	123-198, NISC_nb09b08.y1 COGENE 6E MAN Homo sapiens cDNA clone IMAGE (gb\|CB218523.1\|), blast E-value=3e-24, identity=94.74%
	84-198, BE030010B10E11 BE03 Normalized and Subtracted bovine embryonic and (gb\|CN435463.1\|), blast E-value=2e-40, identity=93.91%
	129-198, 1429739 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DR113642.1\|), blast E-value=2e-25, identity=97.14%

	1-504, gnl\|bosTau2\|chr18 (9520820-9521325)
	1-504, gnl\|Hg17\|chr16 (85160221-85160717)
	1-504, gnl\|Mm7\|chr8 (119751478-119751933)