Non-Coding RNA Search

Ss1.1-rhlv27b_d1.5

Sequence:


               
               CCAAGTTTGGGGTTTGGCACAATCATCAATCTTGATACTCTTAACACCTTAAAGCAAATC
TGCTCTCTCCTAAGAAGCAATTTATGATTGGTTTCCGATTGTTTTTCTCTAGTTAGGACT
CCAGTGTTATGTTTACAGTCTGTGGGATGGATTCAGCATGGTAAGACCTTGGTACCCAAA
GAATCTGTTTCCCTTTTGGTACCAGACCCGAGGTCTTTTAGAAGATAATGTGGCAAACCA
CTACCTGTAAAGGCCAATTTTGGCTAATCGCTGCAGACTCTAATTTTACCCCCTTGTATG
TTTTCTGTCCTAGGCAACTCTCTCCCCCACTCCTCTCTCTTTCTCTCTCTCTTTTAAAGT
ATTAAGACTTAGAAAGCTAGAATAATACTTCTACAAAGAATTAAAAGTTGTGATATTCTG
GTTTTTTCTTCTTTTTTGGAACCCCGTATTTAAATAAGACTTCTTTTTTTAAGTGTTGTT
TAAAATTTAGGTCTCAAATCTTCTGGAATCATGAGACTACCAAATCAAAAACCCATGGCA
TAAAACAGGGCAGTATTTGTGTTCTTAATAATAAAAAAGCTTTATGTGTACTCTGTAAGT
AAAATGCATAGACAACACTTTCCCTTGAGTTGCACACCAACATATAGCATTGTACATTAC
AATGAAATTTGTAACTTAAGGGTATTATATATATAAATACATATATAC

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               CCAAGTTTGGGGTTTGGCACAATCATCAATCTTGATACTCTTAACACCTTAAAGCAAATC
TGCTCTCTCCTAAGAAGCAATTTATGATTGGTTTCCGATTGTTTTTCTCTAGTTAGGACT
CCAGTGTTATGTTTACAGTCTGTGGGATGGATTCAGCATGGTAAGACCTTGGTACCCAAA
GAATCTGTTTCCCTTTTGGTACCAGACCCGAGGTCTTTTAGAAGATAATGTGGCAAACCA
CTACCTGTAAAGGCCAATTTTGGCTAATCGCTGCAGACTCTAATTTTACCCCCTTGTATG
TTTTCTGTCCTAGGCAACTCTCTCCCCCACTCCTCTCTCTTTCTCTCTCTCTTTTAAAGT
ATTAAGACTTAGAAAGCTAGAATAATACTTCTACAAAGAATTAAAAGTTGTGATATTCTG
GTTTTTTCTTCTTTTTTGGAACCCCGTATTTAAATAAGACTTCTTTTTTTAAGTGTTGTT
TAAAATTTAGGTCTCAAATCTTCTGGAATCATGAGACTACCAAATCAAAAACCCATGGCA
TAAAACAGGGCAGTATTTGTGTTCTTAATAATAAAAAAGCTTTATGTGTACTCTGTAAGT
AAAATGCATAGACAACACTTTCCCTTGAGTTGCACACCAACATATAGCATTGTACATTAC
AATGAAATTTGTAACTTAAGGGTATTATATATATAAATACATATATAC

Predicted RNA structure(s): 4 entry(ies)

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Predicted RNA structure(s): 4 entry(ies)

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               117-259, - strand, RNAz p=0.982581
               

               
               148-256, - strand, RNAz p=0.71457
               

               
               421-540, - strand, RNAz p=0.957553
               

               
               581-708, - strand, RNAz p=0.991109

Predicted RNA structure(s): 4 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


               
               117-259, - strand, RNAz p=0.982581
               

               
               148-256, - strand, RNAz p=0.71457
               

               
               421-540, - strand, RNAz p=0.957553
               

               
               581-708, - strand, RNAz p=0.991109

Similar Transcript(s): 6 entry(ies)

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Similar Transcript(s): 6 entry(ies)

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               581-682, UMC-bend_0B02-002-d05 Day 8 Uterus bend Bos taurus cDNA 3', mRNA 
(gb|CK729155.1|), blast E-value=7e-40, identity=96.08% 
               

               
               581-682, UMC-bend_0B01-025-h07 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO728376.1|), blast E-value=7e-40, identity=96.08% 
               

               
               581-682, 1456792 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887134.1|), 
blast E-value=7e-40, identity=96.08% 
               

               
               581-682, 1457007 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887332.1|), 
blast E-value=7e-40, identity=96.08% 
               

               
               581-682, Hw_Fat_23_050802_B06 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV776762.1|), blast E-value=7e-40, identity=96.08% 
               

               
               581-682, HW_Fat_5_C10 Bos taurus CF-24-HW fat cDNA library Bos taurus cDNA, 
(gb|DV780125.1|), blast E-value=7e-40, identity=96.08%

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


               
               581-682, UMC-bend_0B02-002-d05 Day 8 Uterus bend Bos taurus cDNA 3', mRNA 
(gb|CK729155.1|), blast E-value=7e-40, identity=96.08% 
               

               
               581-682, UMC-bend_0B01-025-h07 Day 16 Uterus from a pregnant animal bend Bos 
(gb|CO728376.1|), blast E-value=7e-40, identity=96.08% 
               

               
               581-682, 1456792 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887134.1|), 
blast E-value=7e-40, identity=96.08% 
               

               
               581-682, 1457007 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb|DT887332.1|), 
blast E-value=7e-40, identity=96.08% 
               

               
               581-682, Hw_Fat_23_050802_B06 Bos taurus CF-24-HW fat cDNA library Bos 
(gb|DV776762.1|), blast E-value=7e-40, identity=96.08% 
               

               
               581-682, HW_Fat_5_C10 Bos taurus CF-24-HW fat cDNA library Bos taurus cDNA, 
(gb|DV780125.1|), blast E-value=7e-40, identity=96.08%

Aligned organism(s): 16 entry(ies)

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Aligned organism(s): 16 entry(ies)

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               2-322, gnl|bosTau2|chr18 (13879187-13878860)
               

               
               2-322, gnl|canFam2|chr5 (83354836-83353995)
               

               
               2-322, gnl|dasNov1|scaffold_36335 (608-1475)
               

               
               2-322, gnl|echTel1|scaffold_319253 (54252-55006)
               

               
               2-322, gnl|hg17|chr16 (67899271-67900110)
               

               
               2-322, gnl|Hg17|chr16 (67899755-67900064)
               

               
               2-322, gnl|loxAfr1|scaffold_224267 (890-49)
               

               
               2-322, gnl|mm7|chr8 (105618514-105619234)
               

               
               2-322, gnl|monDom2|scaffold_23 (4966974-4966144)
               

               
               2-322, gnl|oryCun1|scaffold_141494 (16965-17779)
               

               
               2-322, gnl|panTro1|chr18 (62239993-62240832)
               

               
               2-322, gnl|rheMac2|chr20 (67685309-67686154)
               

               
               2-322, gnl|rn3|chr19 (36878221-36878910)
               


               
               345-708, gnl|bosTau2|chr18 (13878864-13878503)
               

               
               345-708, gnl|Hg17|chr16 (67900060-67900413)
               

               
               345-708, gnl|Mm7|chr8 (105619198-105619812)

Aligned organism(s): 16 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


               
               2-322, gnl|bosTau2|chr18 (13879187-13878860)
               

               
               2-322, gnl|canFam2|chr5 (83354836-83353995)
               

               
               2-322, gnl|dasNov1|scaffold_36335 (608-1475)
               

               
               2-322, gnl|echTel1|scaffold_319253 (54252-55006)
               

               
               2-322, gnl|hg17|chr16 (67899271-67900110)
               

               
               2-322, gnl|Hg17|chr16 (67899755-67900064)
               

               
               2-322, gnl|loxAfr1|scaffold_224267 (890-49)
               

               
               2-322, gnl|mm7|chr8 (105618514-105619234)
               

               
               2-322, gnl|monDom2|scaffold_23 (4966974-4966144)
               

               
               2-322, gnl|oryCun1|scaffold_141494 (16965-17779)
               

               
               2-322, gnl|panTro1|chr18 (62239993-62240832)
               

               
               2-322, gnl|rheMac2|chr20 (67685309-67686154)
               

               
               2-322, gnl|rn3|chr19 (36878221-36878910)
               


               
               345-708, gnl|bosTau2|chr18 (13878864-13878503)
               

               
               345-708, gnl|Hg17|chr16 (67900060-67900413)
               

               
               345-708, gnl|Mm7|chr8 (105619198-105619812)

Expressed library(ies): 12 entry(ies)

More info

Expressed library(ies): 12 entry(ies)

Help | Less info


               
               amn (0.417711)
               

               
               elu (0.385356)
               

               
               nlu (0.191681)
               

               
               sag (0.182715)
               

               
               fhi (0.169578)
               

               
               hlv (0.139256)
               

               
               nca (0.136874)
               

               
               ste (0.135208)
               

               
               kid (0.129735)
               

               
               ova (0.129132)
               

               
               eru (0.120048)
               

               
               jej (0.0989218)

Expressed library(ies): 12 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)
               

               
               elu (0.385356)
               

               
               nlu (0.191681)
               

               
               sag (0.182715)
               

               
               fhi (0.169578)
               

               
               hlv (0.139256)
               

               
               nca (0.136874)
               

               
               ste (0.135208)
               

               
               kid (0.129735)
               

               
               ova (0.129132)
               

               
               eru (0.120048)
               

               
               jej (0.0989218)

	117-259, - strand, RNAz p=0.982581
	148-256, - strand, RNAz p=0.71457
	421-540, - strand, RNAz p=0.957553
	581-708, - strand, RNAz p=0.991109

	581-682, UMC-bend_0B02-002-d05 Day 8 Uterus bend Bos taurus cDNA 3', mRNA (gb\|CK729155.1\|), blast E-value=7e-40, identity=96.08%
	581-682, UMC-bend_0B01-025-h07 Day 16 Uterus from a pregnant animal bend Bos (gb\|CO728376.1\|), blast E-value=7e-40, identity=96.08%
	581-682, 1456792 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT887134.1\|), blast E-value=7e-40, identity=96.08%
	581-682, 1457007 MARC 7BOV Bos taurus cDNA 3', mRNA sequence (gb\|DT887332.1\|), blast E-value=7e-40, identity=96.08%
	581-682, Hw_Fat_23_050802_B06 Bos taurus CF-24-HW fat cDNA library Bos (gb\|DV776762.1\|), blast E-value=7e-40, identity=96.08%
	581-682, HW_Fat_5_C10 Bos taurus CF-24-HW fat cDNA library Bos taurus cDNA, (gb\|DV780125.1\|), blast E-value=7e-40, identity=96.08%

	2-322, gnl\|bosTau2\|chr18 (13879187-13878860)
	2-322, gnl\|canFam2\|chr5 (83354836-83353995)
	2-322, gnl\|dasNov1\|scaffold_36335 (608-1475)
	2-322, gnl\|echTel1\|scaffold_319253 (54252-55006)
	2-322, gnl\|hg17\|chr16 (67899271-67900110)
	2-322, gnl\|Hg17\|chr16 (67899755-67900064)
	2-322, gnl\|loxAfr1\|scaffold_224267 (890-49)
	2-322, gnl\|mm7\|chr8 (105618514-105619234)
	2-322, gnl\|monDom2\|scaffold_23 (4966974-4966144)
	2-322, gnl\|oryCun1\|scaffold_141494 (16965-17779)
	2-322, gnl\|panTro1\|chr18 (62239993-62240832)
	2-322, gnl\|rheMac2\|chr20 (67685309-67686154)
	2-322, gnl\|rn3\|chr19 (36878221-36878910)

	345-708, gnl\|bosTau2\|chr18 (13878864-13878503)
	345-708, gnl\|Hg17\|chr16 (67900060-67900413)
	345-708, gnl\|Mm7\|chr8 (105619198-105619812)

	amn (0.417711)
	elu (0.385356)
	nlu (0.191681)
	sag (0.182715)
	fhi (0.169578)
	hlv (0.139256)
	nca (0.136874)
	ste (0.135208)
	kid (0.129735)
	ova (0.129132)
	eru (0.120048)
	jej (0.0989218)