RNA id: TCONS_00005978


Basic Information

Item Value
RNA id TCONS_00005978
length 759
lncRNA type read_through
GC content 0.34
exon number 2
gene id XLOC_002525
representative False

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 3322137 ~ 3332362 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTTTGTCAGGGTCATTCAGGAGAGTAAACGTGCTCCCCTTGAGCAAAACATTCAAGATCACTTTCAAAAGTACTGCTTTTATGCAGCGATGCCATAGTTTTTGGtttaatcacaaaatacggaaactgttcattaccagatatttttttaagtgtatgttTTTCGAGAAAGTTGTATACAGAACCGTCCAAAAGTTGAATGTTAGtaagacattaaaaatattttggaaagaAGTTTTATATGTTTACCAAGGatggatttatttacatttttaaaaagcagtaaATAGCATAACTGCTATATTAAATGAAATTGATCCCTttgatttaaagctgaattttactCTCggcacgatccttcagaaatcaataTTGCTTCAGCCTTTATTCAAAAACCTCTGTATCATTATAATCGGACCAAATGAATGCATCCTTTCTAAACACACTCATTTCTTTCAAAAAGAAAACTCTTACTGGCAGCTTTGGTACTGTATTGTTTCTCATTTACTGTGAAGAAGGCCCGAGCAACAAGCAAAACTCTAAATAACACAAAACAATACGACTGTTTTCactttttattagaatttttcagTTGCCACTGGAAAATGGGGTACAGAGACCAAGGTCTTCAGTTCTAAAATTAGTttgactatgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtatatttacacAGTCAAACCTGAAATTATTCACACCCCTGGAAAATTCAGACTAGacctgcacaattaatcgttaaaa

Function

GO:

id name namespace
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0016070 RNA metabolic process biological_process
GO:0007492 endoderm development biological_process
GO:0048762 mesenchymal cell differentiation biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0065007 biological regulation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060896 neural plate pattern specification biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0060897 neural plate regionalization biological_process
GO:0043009 chordate embryonic development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0048785 hatching gland development biological_process
GO:0048513 animal organ development biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0060429 epithelium development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0048562 embryonic organ morphogenesis biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0090092 regulation of transmembrane receptor protein serine/threonine kinase signaling pathway biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:0044238 primary metabolic process biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process biological_process
GO:1901166 neural crest cell migration involved in autonomic nervous system development biological_process
GO:1903045 neural crest cell migration involved in sympathetic nervous system development biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0019438 aromatic compound biosynthetic process biological_process
GO:0007417 central nervous system development biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0007420 brain development biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0035987 endodermal cell differentiation biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0060322 head development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003690 double-stranded DNA binding molecular_function
GO:0097159 organic cyclic compound binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:1901363 heterocyclic compound binding molecular_function
GO:0140110 transcription regulator activity molecular_function
GO:0001067 regulatory region nucleic acid binding molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function

KEGG:

id description
ko03230 Viral genome structure
ko05164 Influenza A
ko03200 Viral proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005977 lncRNA downstream 422833 2897979 ~ 2899304 (-) True XLOC_002518
TCONS_00004699 lncRNA downstream 550100 2766874 ~ 2772037 (-) False XLOC_002516
TCONS_00005976 lncRNA downstream 1368678 1948097 ~ 1953459 (-) True XLOC_002510
TCONS_00005974 lncRNA downstream 1603500 1708092 ~ 1718637 (-) False XLOC_002505
TCONS_00005975 lncRNA downstream 1605587 1712579 ~ 1716550 (-) True XLOC_002505
TCONS_00004718 lncRNA upstream 85918 3412549 ~ 3416153 (-) True XLOC_002527
TCONS_00004721 lncRNA upstream 95550 3422181 ~ 3427358 (-) True XLOC_002528
TCONS_00005979 lncRNA upstream 627459 3954090 ~ 3956849 (-) True XLOC_002531
TCONS_00005744 lncRNA upstream 705847 4032478 ~ 4046317 (-) True XLOC_002532
TCONS_00005980 lncRNA upstream 711595 4038226 ~ 4040505 (-) True XLOC_002533
TCONS_00004713 mRNA downstream 26940 3268581 ~ 3295197 (-) True XLOC_002524
TCONS_00004712 mRNA downstream 64064 3187289 ~ 3258073 (-) True XLOC_002523
TCONS_00004711 mRNA downstream 183278 3133098 ~ 3138859 (-) True XLOC_002522
TCONS_00004710 mRNA downstream 288867 3031636 ~ 3033270 (-) False XLOC_002521
TCONS_00004709 mRNA downstream 288867 3031636 ~ 3033270 (-) True XLOC_002521
TCONS_00004715 mRNA upstream 38019 3364650 ~ 3394290 (-) False XLOC_002526
TCONS_00004716 mRNA upstream 39472 3366103 ~ 3394256 (-) True XLOC_002526
TCONS_00004717 mRNA upstream 71240 3397871 ~ 3416258 (-) False XLOC_002527
TCONS_00004719 mRNA upstream 93201 3419832 ~ 3427630 (-) False XLOC_002528
TCONS_00004720 mRNA upstream 93857 3420488 ~ 3427589 (-) False XLOC_002528
TCONS_00004703 other downstream 446402 2866720 ~ 2875735 (-) False XLOC_002517
TCONS_00004704 other downstream 446402 2868478 ~ 2875735 (-) True XLOC_002517
TCONS_00004658 other downstream 2982110 339912 ~ 340027 (-) True XLOC_002487
TCONS_00004640 other downstream 3245946 73450 ~ 76191 (-) True XLOC_002475
TCONS_00004639 other downstream 3247747 72433 ~ 74390 (-) False XLOC_002475
TCONS_00004722 other upstream 179909 3506540 ~ 3506654 (-) True XLOC_002529
TCONS_00004723 other upstream 442020 3768651 ~ 3768766 (-) True XLOC_002530
TCONS_00004736 other upstream 1691927 5018558 ~ 5020500 (-) False XLOC_002543
TCONS_00004737 other upstream 1693555 5020186 ~ 5022414 (-) False XLOC_002543
TCONS_00004738 other upstream 1693646 5020277 ~ 5024285 (-) True XLOC_002543

Expression Profile

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