RNA id: TCONS_00005641


Basic Information

Item Value
RNA id TCONS_00005641
length 4160
RNA type mRNA
GC content 0.54
exon number 31
gene id XLOC_003079
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 44309997 ~ 44355534 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATGGATCCTGGTCAAGATTTGCTTCTGGCTGCTCTCAGTGAGAGTGGGATCTGCCCCAATGACCTGTTTGATGTGGATGTTCAGGACAGTGTTCCTCTGGTGTCCTCACAGCAGCCGGTCTCATTAAATGCACTCGACATCGGTCTCAGTAATGAAGCTTCAGGAGTCGTCAGGATTGATCCTCCAGTTCCTCCAACACCTACAGTCACAATCAGGGAGAAGCCTCAGCCCTCCACCACCACCTTTGTGCTGAATCAGCTGAATCAGTTGCCTTCGCTGGGAACCATCGTGGTCTCCAAACCCTCGACGGGCAGCAGCACCAGACAGACCATCACCGTCACCAAGGTGCTGCACAGCTCCTCTCCAGCACAGCGCAGCTCCGCTTCTCCCAGCGTCTGCACTGCGGCTCCGGCAAACACTGAGCAGATCCGGCTGAAGGACCTGCTGAGGAGCAGCAGCCTGAAGAGCAGCAGTCTGGGGGAGCTAATGAAGCTGAAGCCCCCGGCAGACATCGCACCACCTGTCGCCACCGCCACTGGCACTACGGAAGTAAACAACGGCTTGAAGAAAGAAGTGTCCAGCAAAGATGTAGCAAGAATCTGGATCAACGATGACATGAAAATGCGCAGCTTCTCACCTGTAAATAAACTACCAGGAatgaaggaggaagaggagccagaggaggaggaagaggaggagctcGGCCATGCAGAGACGTATGCCGAATACATGCCAATGAAGCTGCGTATCGGTCTGCGGCACCCTGACCCCGTGGTGGAGACCAGTTCTCTGTCCAGCGTGAACCCTCCGGATGTTTGGTACAGACTCTCCATCCCAGAGGAGACCATCGACCGGGGCTGGCTGTCTGCGCTGCAGCTGGAGGCCGTCACCTACGCTGCACAGcaACACGAGACGTTCCTGCCGAATGGGGACCGAGCGGCGTATCTGATAGGAGACGGTGCTGGAGTGGGAAAGGGCAGAACCATTGCTGGAATCATATATGAGAATTACCTTCTGGGCAGGAAAAGATCTCTCTGGTTTAGTGTCTCCAATGATTTGAAATATGATGCAGAAAGAGACTTGAGGGACATCGGCGCGAAAAACATTCAGGTTCATTCACTAAACAAGTTTAAATACGGAAAGATTTCCTCCAAACACAACGGCAGTGTGAAGAAAGGCGTGATCTTTGCCACATACTCATCTCTGATTGGAGAGAGTCAGTCTGGAGGAAAATACAAGACCAGGTTTAAGCAGCTCCTGCACTGGTGTGGAGACGACTTTGACGGCGTCATTGTGTTTGACGAGTGTCACAAAGCCAAAAACGTTTGTCCGATCGGATCCTCCAAACCCACCAAGACGGGATTGGCAGTGTTAGAGCTGCAAAACAAGCTGCCGAAGGCACGAGTCGTGTACGCTAGCGCCACAGgagcgTCTGAACCCCGCAATATGGCCTACATGAATCGCCTGGGCATCTGGGGGGAGGGAACTCCATTCAGGGAATTTGCAAACTTCATCCAAGCTGTGGAGAgacgAGGTGTGGGCGCCATGGAGATTGTTGCCATGGATATGAAGCTGAGAGGGATGTACATTGCTCGGCAGCTGAGCTTCACAGGCGTGACGTTTAAGATCGAGGAAGTTCCTCTGACGCTGGACTACATCAAGATGTACAACAAAGCAGTGCGACTGTGGGTGAGCGCGAGAGAGAAGTTCCAGCAGGCGGCTCAGCTGATGGATGCGGAGCAGCGGATGAAGAAGTCCATGTGGGGTCAGTTCTGGTCGGCACACCAGCGCTTCTTCAAGTACCTGTGCATCGCCTCTAAAGTGCGACGTGTGGTGCAGCTCGCCCGAGAGGACGTCAAGAACGGCAAGTGTGTGGTGATTGGCCTGCAGTCCACTGGAGAAGCTCGAACCCTGGAGGCTCTGGAGGAGGGAGGAGGAGAACTCAATGACTTTGTGTCCACTGCAAAggGTGTGCTGCAGTCTCTGGTGGAGAAGCATTTTCCAGCtccagacagacagaaactcttcAGTCTCTTAGGCATCGACCTGAGCGCCAAGAAAACACCTTCACCTGCGGAAAACAAGACTGAGCAGAAGGGCAAGAAGAGGAAAGGTCCTGAAAGTAAGAAGCATGTGAAGAAAGCTCGTAAATCAGGCGGTCTGTCGGGCAGCAGCTCAGACGACAGCAGCTCAGAGGACTCGGATAGAGACGCAGAAAGTGACGACAGCTTTAAATCCATCAGTTCTGGGGACGAAGACGACTTTAACCCCTTCAAAGACGACTCCAGCGAGGATGAGGAGGACGATCCGTGGCTCATCAGGAAAGACTCCAAAAAGAGCAAAGACAAGAGgaacaagaagaagaaaaagagcatTGATCCAGACTCCATTCAAAGTGCCTTACTGGCCTCCGGGCTCGGGACAACCAGACCTACATTTACAGCTCCCATCAAACCCGCAAACCCCACGCTTGCTGTCGCTAAGAGTGACCCGGAGGAGAGCAGCTGTGTGACGAGTCAGGACGCGGTGGAGGACGCTCAGCGCATGAAGAGAGATCTGCTGGAGAAGCTGGAGCTGCTGGCTGAGGATCTGCCTCCTAACACACTGGACCAGCTCATCGACGAGCTCGGGGGACCAGACAACGTGgccgagatgACTGGTCGTAAAGGCCGGGTGGTCAGCAATGATGACGGCAGCATCTCCTATGAGTCTCGCTCAGAGCTGGACGTTCCTGTGGAGATCCTGAACCTGACGGAGAAGCAGAGGTTCATGGATGGAGATAAGAACATCGCTATCATCTCTGAAGCCGCCAGCTCTGGGATCTCTCTGCAGGCCGACGCAGGGTGAAGAACCAGCGGCGGAGGGTCCACATGACCCTGGAGCTGCCCTGGAGCGCAGACAGAGCCATTCAGCAGTTCGGTCGAACACACAGATCTAACCAGGTCACAGCACCAGAGTATGTGTTCCTGATCTCAGAGCTGGCTGGAGAGCAGAGATTCGCCTCTATAGTGGCCAAACGCCTGGAGAGTCTGGGCGCTTTAACACATGGAGACAGAAGAGCCACCGAGACCAGAGACCTCAGCCGCTTTAACTTCGACAATAAATATGGCAGAAACGCTCTGGAGATCGTCATGAAGTCCATCGTGAGTCTGGACTCTCCTCTGGTGTCTCCTCCTGCTGACTTTGATGGAGATTTCTTTAAAGaaaTCCGCAATGGCTTGATCGGCGTGGGGCTGATAAACGTGGAGGACCGGTCTGGAGTTCTCTCGCTGGACAAAGATTACAACAACATCGGGAAGTTCCTGAACAGGATTCTGGGAATGGAGGTGCAGCAGCAGAACGCTCTGTTTCAGTATTTCTCCGACACGCTGAGCGCCGTCATCCAGAACGCCAAGAAGAGCGGCAGATACGACATGGGCATTTTAGatttgGGCTCTGGAGATGAGAAGGTGAAGAAGGTGGACGTGAAGAAGTTTCTGACTCCTGGATATTCCACATCAGGACACGTGGAGCTCTACACtgtcagTGTGGAGAGGGGGATGTCATGGGAGGAAGCCACACATGTCTGGGCTGATCAGAACGGGCCTGATGACGGCTTCTACGTGCAGGTGCGCAATAATAAGAAGATCGCCATCCTGGTGAAGGAGGTAAACCCGCGGAAGAGGCTCTTCATGGTCTACAGACCCAACATCGGGAAACAGGTCAAGCTGGAGACCTACACCGACATCAAGAAGAGGAGCAAGAAGGTTCTGTCTGATGATGCCAAACAGCACTGGATGGATCAGTACAGCTGCTCTGCTGACGTCTGCTCACACGCTTACTGgcgagGGAACTGTAAGAAGGCGTCAGTGGGTCTGCAGTGTGAGATCGGCCTGCGCTGCAGAACGTATTTCGTGCTCTGCGGCTCCGTGCTCAGCGTCTGGACCAAAGTGGAGGGAGTTCTGGCGTCCGTCAGCGGAGCCAACGTCAAGATGCAGATCGTGCGCTTGAGGACGGAGGACGGTCAGAGGATTGTGGGTCTGATCATCCCGCAGAACTGTGTGTCTCCGCTGGTCAACATCCTGTCATCATCAGATCAGAGTCAGCAGCTGGCGGTGCAGCAGCAACATTTATGGCAGCAGCTGCACCCGCagagcctcacacacacacctctcacgtaa

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0021999 neural plate anterior/posterior regionalization biological_process
GO:0005634 nucleus cellular_component
GO:0031490 chromatin DNA binding molecular_function
GO:0042393 histone binding molecular_function
GO:0005515 protein binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-080522-2 Predicted to enable chromatin DNA binding activity and histone binding activity. Acts upstream of or within neural plate anterior/posterior regionalization. Predicted to be active in nucleus. Is expressed in central nervous system; eye; immature eye; neural tube; and otic vesicle. Used to study schizophrenia. Orthologous to human SBNO1 (strawberry notch homolog 1).

Ensembl:

ensembl_id ENSDART00000160231

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005636 lncRNA downstream 34112 44268481 ~ 44275885 (-) True XLOC_003076
TCONS_00005635 lncRNA downstream 56893 44242236 ~ 44253104 (-) True XLOC_003075
TCONS_00005608 lncRNA downstream 769813 43499529 ~ 43540184 (-) True XLOC_003062
TCONS_00006134 lncRNA downstream 769953 43499529 ~ 43540044 (-) False XLOC_003062
TCONS_00006133 lncRNA downstream 813781 43484627 ~ 43496216 (-) True XLOC_003063
TCONS_00006135 lncRNA upstream 25384 44380918 ~ 44387802 (-) True XLOC_003080
TCONS_00005646 lncRNA upstream 138385 44493919 ~ 44501719 (-) False XLOC_003084
TCONS_00005645 lncRNA upstream 138385 44493919 ~ 44501719 (-) True XLOC_003084
TCONS_00006136 lncRNA upstream 618702 44974236 ~ 44976643 (-) True XLOC_003090
TCONS_00006137 lncRNA upstream 691695 45047229 ~ 45051485 (-) False XLOC_003094
TCONS_00005640 mRNA downstream 3361 44302220 ~ 44306636 (-) True XLOC_003078
TCONS_00005639 mRNA downstream 3598 44302220 ~ 44306399 (-) False XLOC_003078
TCONS_00005638 mRNA downstream 4817 44302220 ~ 44305180 (-) False XLOC_003078
TCONS_00005634 mRNA downstream 68878 44239844 ~ 44241119 (-) True XLOC_003074
TCONS_00005633 mRNA downstream 282606 44021224 ~ 44027391 (-) True XLOC_003073
TCONS_00005642 mRNA upstream 53141 44408675 ~ 44411032 (-) True XLOC_003081
TCONS_00005643 mRNA upstream 106913 44462447 ~ 44467384 (-) True XLOC_003082
TCONS_00005644 mRNA upstream 118317 44473851 ~ 44482911 (-) True XLOC_003083
TCONS_00005647 mRNA upstream 148285 44503819 ~ 44508249 (-) True XLOC_003085
TCONS_00005648 mRNA upstream 157697 44513231 ~ 44517186 (-) True XLOC_003086
TCONS_00005629 other downstream 292332 44008209 ~ 44017665 (-) False XLOC_003072
TCONS_00005631 other downstream 294258 44009952 ~ 44015739 (-) True XLOC_003072
TCONS_00005619 other downstream 477329 43831882 ~ 43832668 (-) True XLOC_003068
TCONS_00005616 other downstream 550465 43718760 ~ 43759532 (-) False XLOC_003066
TCONS_00005617 other downstream 550518 43735286 ~ 43759479 (-) True XLOC_003066

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000177_00119283_00126859.mRNA True 2342 mRNA 0.48 17 CI01000177 119283 ~ 126859 (+)
bowfin (Amia calva) AMCG00018796 True 4215 mRNA 0.47 33 CM030135.1 20608895 ~ 20624686 (-)