Non-Coding RNA Search

Ss1.1-Pig4-TMW8067B16.3

Sequence:


               
               GCAGTGCAGGTGTCTTGCTCAGCCTGTGCGAACAGCCCATGGCTTCTTGGCTGAATGTAG
AGTGTGTCTTTCCCCCACCCCATGTACTTGTCTCTTCCTAGTGATTCTGTTTGGCCGTTT
CAGCAAGAATAATATTTTGTTCTGTTTTTTAAGAGAAAGTATTCAACATGAATGTGGGGA
GGACAAACACAAAAAGATTTAGGTTGCCAATGTTACAAGCATGTGCAGTTTTGTGTGTGT
GTATACATATATATATATGATAAGCATATATATTGTTGTGCAGCTAGGGTGAAGCCAGCA
AAGAAGTATGTATGTCTTTATGAAATGTTTGGAAAGAGATAAGCTGACTGCTTGATAATC
ATTCTCAGGTGTAAAGCTCCAAGTGTAAATAAAAGTGGCATTTAACAAATCTTTTCAGAA
CAAAGTACAGCTGACTATATAAAACAATAACTAAGCTAAAGGAACAGCTGAGAGCTGCTG
ATTCCAAGAGGGAAAGGAATCTAGAAGCCCCACTTTGTATTTCGTCACCCTGCTTTCTAT
AAGAAAGTGGGGTGATGTGAAATCATGGAATTAATCATGTATTTAAACATAAAAATGAAC
TTGGTAATTCTTCTGGGTTTAGTAGAGCCTCAGTGTTGCTTTAACTTAGTTTACACTTTA
TTTTATTTAAAAAAAAAAAGCAGCAATGGATGGTTTTTAAAAAGAATTGTGACTGTAAAA
TTGATAAATGTGACTGTAACACAGCCATGTGGTGGCTGTGACGCAGTTCGGTTGGGCAAA
GGAGTGGTGATGGACTCATTAAAATCATAGATACTTGAATAGTCCATTAACCGAAACTCT
ATAGACTATTGTGTAAATGTGGAATCACAGACTGTTAAACATCGCCTGGACTCCAGCCGA
GTCCTGGGGGCTGCTGGGACCTCTCCTATAATGACAAACTTGGACTTTTTTTTTTTTTCC
TTCTGGTTTTAAAAGACATGAAATTATAGAATCCATATAATTTGCTGGAGTCATTCTGAT
CCACCATGTAGATCTGTATTTAGTATCATTTGGATTTGGAGAAGTGTTGATTACATTATG
GCTGTGTAATAAAATTTTTATTAAACTGCAAAAAAA

Sequence:

Distiller database | Help | Less info

Blue-coloured subsequences are predicted RNA structures by RNAz


               
               GCAGTGCAGGTGTCTTGCTCAGCCTGTGCGAACAGCCCATGGCTTCTTGGCTGAATGTAG
AGTGTGTCTTTCCCCCACCCCATGTACTTGTCTCTTCCTAGTGATTCTGTTTGGCCGTTT
CAGCAAGAATAATATTTTGTTCTGTTTTTTAAGAGAAAGTATTCAACATGAATGTGGGGA
GGACAAACACAAAAAGATTTAGGTTGCCAATGTTACAAGCATGTGCAGTTTTGTGTGTGT
GTATACATATATATATATGATAAGCATATATATTGTTGTGCAGCTAGGGTGAAGCCAGCA
AAGAAGTATGTATGTCTTTATGAAATGTTTGGAAAGAGATAAGCTGACTGCTTGATAATC
ATTCTCAGGTGTAAAGCTCCAAGTGTAAATAAAAGTGGCATTTAACAAATCTTTTCAGAA
CAAAGTACAGCTGACTATATAAAACAATAACTAAGCTAAAGGAACAGCTGAGAGCTGCTG
ATTCCAAGAGGGAAAGGAATCTAGAAGCCCCACTTTGTATTTCGTCACCCTGCTTTCTAT
AAGAAAGTGGGGTGATGTGAAATCATGGAATTAATCATGTATTTAAACATAAAAATGAAC
TTGGTAATTCTTCTGGGTTTAGTAGAGCCTCAGTGTTGCTTTAACTTAGTTTACACTTTA
TTTTATTTAAAAAAAAAAAGCAGCAATGGATGGTTTTTAAAAAGAATTGTGACTGTAAAA
TTGATAAATGTGACTGTAACACAGCCATGTGGTGGCTGTGACGCAGTTCGGTTGGGCAAA
GGAGTGGTGATGGACTCATTAAAATCATAGATACTTGAATAGTCCATTAACCGAAACTCT
ATAGACTATTGTGTAAATGTGGAATCACAGACTGTTAAACATCGCCTGGACTCCAGCCGA
GTCCTGGGGGCTGCTGGGACCTCTCCTATAATGACAAACTTGGACTTTTTTTTTTTTTCC
TTCTGGTTTTAAAAGACATGAAATTATAGAATCCATATAATTTGCTGGAGTCATTCTGAT
CCACCATGTAGATCTGTATTTAGTATCATTTGGATTTGGAGAAGTGTTGATTACATTATG
GCTGTGTAATAAAATTTTTATTAAACTGCAAAAAAA

Predicted RNA structure(s): 3 entry(ies)

More info

Predicted RNA structure(s): 3 entry(ies)

Help | Less info


               
               193-295, - strand, RNAz p=0.988537
               

               
               416-570, - strand, RNAz p=0.90811
               

               
               650-846, + strand, RNAz p=0.989892

Predicted RNA structure(s): 3 entry(ies)

Help | Less info

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


               
               193-295, - strand, RNAz p=0.988537
               

               
               416-570, - strand, RNAz p=0.90811
               

               
               650-846, + strand, RNAz p=0.989892

Predicted microRNA(s): 1 entry(ies)

More info

Predicted microRNA(s): 1 entry(ies)

Help | Less info


               
               504-598, + strand, RNAmicro p=0.999965

Predicted microRNA(s): 1 entry(ies)

Help | Less info

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


               
               504-598, + strand, RNAmicro p=0.999965

Similar Transcript(s): 6 entry(ies)

More info

Similar Transcript(s): 6 entry(ies)

Help | Less info


               
               680-840, DB524818 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB524818.1|), blast E-value=7.9874e-44, identity=89.44% 
               

               
               694-838, AM017969 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007413e21 
(emb|AM017969.1|), blast E-value=0, identity=92.41% 
               

               
               694-840, CR455967 Normalized and Subtracted bovine embryonic and 
(emb|CR455967.2|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               694-840, BE04026A1D03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441446.1|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               694-840, BovGen_13806 normal cattle brain Bos taurus cDNA clone 
(gb|CO885481.1|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               694-840, sh2P0013P03_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, 
(gb|DY494790.1|), blast E-value=7.9874e-44, identity=91.89%

Similar Transcript(s): 6 entry(ies)

Help | Less info

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


               
               680-840, DB524818 RIKEN full-length enriched human cDNA library, testis Homo 
(dbj|DB524818.1|), blast E-value=7.9874e-44, identity=89.44% 
               

               
               694-838, AM017969 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007413e21 
(emb|AM017969.1|), blast E-value=0, identity=92.41% 
               

               
               694-840, CR455967 Normalized and Subtracted bovine embryonic and 
(emb|CR455967.2|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               694-840, BE04026A1D03 BE04 Normalized and Subtracted bovine embryonic and 
(gb|CN441446.1|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               694-840, BovGen_13806 normal cattle brain Bos taurus cDNA clone 
(gb|CO885481.1|), blast E-value=1.4013e-45, identity=91.84% 
               

               
               694-840, sh2P0013P03_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, 
(gb|DY494790.1|), blast E-value=7.9874e-44, identity=91.89%

Homologous human UTR: 1 entry(ies)

More info

Homologous human UTR: 1 entry(ies)

Help | Less info


               
               3' of NM_015138, +

Homologous human UTR: 1 entry(ies)

Help | Less info

Human gene identifier and UTR site,
human gene reading direction


               
               3' of NM_015138, +

Aligned organism(s): 3 entry(ies)

More info

Aligned organism(s): 3 entry(ies)

Help | Less info


               
               4-1110, gnl|bosTau2|chr10 (22995980-22997068)
               

               
               4-1110, gnl|Hg17|chr15 (39561093-39562471)
               

               
               4-1110, gnl|Mm7|chr2 (119474662-119475723)

Aligned organism(s): 3 entry(ies)

Help | Less info

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


               
               4-1110, gnl|bosTau2|chr10 (22995980-22997068)
               

               
               4-1110, gnl|Hg17|chr15 (39561093-39562471)
               

               
               4-1110, gnl|Mm7|chr2 (119474662-119475723)

Expressed library(ies): 15 entry(ies)

More info

Expressed library(ies): 15 entry(ies)

Help | Less info


               
               aor (0.390549)
               

               
               cte (0.29274)
               

               
               spl (0.286369)
               

               
               cst (0.280073)
               

               
               fce (0.271592)
               

               
               hea (0.204499)
               

               
               nje (0.16592)
               

               
               cje (0.165235)
               

               
               lun (0.150489)
               

               
               ski (0.146735)
               

               
               che (0.136314)
               

               
               ste (0.135208)
               

               
               pgl (0.118483)
               

               
               jca (0.11396)
               

               
               ldo (0.0970026)

Expressed library(ies): 15 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


               
               aor (0.390549)
               

               
               cte (0.29274)
               

               
               spl (0.286369)
               

               
               cst (0.280073)
               

               
               fce (0.271592)
               

               
               hea (0.204499)
               

               
               nje (0.16592)
               

               
               cje (0.165235)
               

               
               lun (0.150489)
               

               
               ski (0.146735)
               

               
               che (0.136314)
               

               
               ste (0.135208)
               

               
               pgl (0.118483)
               

               
               jca (0.11396)
               

               
               ldo (0.0970026)

	193-295, - strand, RNAz p=0.988537
	416-570, - strand, RNAz p=0.90811
	650-846, + strand, RNAz p=0.989892

	680-840, DB524818 RIKEN full-length enriched human cDNA library, testis Homo (dbj\|DB524818.1\|), blast E-value=7.9874e-44, identity=89.44%
	694-838, AM017969 KN-252-liver, Bos taurus Bos taurus cDNA clone C0007413e21 (emb\|AM017969.1\|), blast E-value=0, identity=92.41%
	694-840, CR455967 Normalized and Subtracted bovine embryonic and (emb\|CR455967.2\|), blast E-value=1.4013e-45, identity=91.84%
	694-840, BE04026A1D03 BE04 Normalized and Subtracted bovine embryonic and (gb\|CN441446.1\|), blast E-value=1.4013e-45, identity=91.84%
	694-840, BovGen_13806 normal cattle brain Bos taurus cDNA clone (gb\|CO885481.1\|), blast E-value=1.4013e-45, identity=91.84%
	694-840, sh2P0013P03_F.ab1 adult sheep fracture callus 7d Ovis aries cDNA, (gb\|DY494790.1\|), blast E-value=7.9874e-44, identity=91.89%

	4-1110, gnl\|bosTau2\|chr10 (22995980-22997068)
	4-1110, gnl\|Hg17\|chr15 (39561093-39562471)
	4-1110, gnl\|Mm7\|chr2 (119474662-119475723)

	aor (0.390549)
	cte (0.29274)
	spl (0.286369)
	cst (0.280073)
	fce (0.271592)
	hea (0.204499)
	nje (0.16592)
	cje (0.165235)
	lun (0.150489)
	ski (0.146735)
	che (0.136314)
	ste (0.135208)
	pgl (0.118483)
	jca (0.11396)
	ldo (0.0970026)