RNA id: TCONS_00004181


Basic Information

Item Value
RNA id TCONS_00004181
length 1624
RNA type mRNA
GC content 0.46
exon number 10
gene id XLOC_002170
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 26652859 ~ 26667243 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATTCCGGAAGACGCAAAGCGGTGGACTTGCGTGTTGCCCTCGGAAGTGCAACATTTATACGTTTTGGAGGTTCGCTGGGCAAGATGAGCGGGGACTCAGACGGTAATAAAGAGTTCCACGAGCAGCTCCGGTTGCAGCAGCTGTATGAACAGAGGCAAGAGAATTCAGACGATCCCTACACATACACCGACCCAGAAGACGGCACTGTGTATGACTGGGACCATGAAAAGAGAGCCTGGTTTCCAAAGATAAATGATGATTTCATCGCAGCATATCAAGCAAACTATGGATTTAATGAGGAAGGAGCTCCTGATCCGTCTGCTGCAGTTAATTCAGCTGAATCCCTCCCTGCCAAATCAGAGGAGCCGAAGAAACCAGAGGAACCCACGAAACCGGCGGAAGCGCCAGAGCAGGGGAAAAATAAAGAGGGAGAGAAGAAAGGAGAGAAAAGAAAAGCAGATCCAACTTGGTTTGAagttgaaaaggaaaaaaacacaaatgtttatGTGACCGGCCTTCCTCCAGACATCACTCCTGATGAGTTTGTGGAGGTGATGTCCAAATGTGGAATTGTCATGCGTGATCCCATCACAGAGGaatataaaatcaaaatataCAAGGACAAAGACGGGAACCAAAAAGGAGATGGACTGTGCTGCTACTTAAAGAAAGAGTCTGTCGCTCTAGCTAAGCAGCTCTTGGATGAGACAGAGATTCGGGGCTACCGGCTGCATGTGGAGGAAGCACGATTTGAACTTAAAGGGCAATTTGATGCCagcaagaagaagaaaaagaacaaaGAGTACCGCAAAAAACTACAGCAGCAACAAAAGCAGCTGGATTGGAGGCCTGAGAAGAGCGGAGAAGTGCGCAAAAGACACGAAAAAGTTATCATCATCCAAAACATGTTTCATCCCACTGACTTTGAGGAGGATCCTCTGGTCCTCAACGAGTATAGAGATGATCTGCGGACAGAATGTGAGAAATTCGGGCAAGTGAAGAAAGTGATCATTTTTGATAGGCACCCTGATGGAGTGGCGTCAGTGGCATTTAAGGAGCCTGAAGAGGCAGACGCGTGTCAGGTGGCTTTGAACGGACGCTGGTTTGGAGGAAGGAAACTCTCAGCTCTGCTGTGGGACGGCGTGACCGACTACCAGGTTGAGGAAACGTCACGAGAGCGAGAAGAGAGACTGAAAGGCTGGTCGTCTTTTCTGGGCGATGAAAAAGGATCTGGCGAAGCTAAAGCTAACTCCACAAAAACAGACGAACAACAGAATTCCAGCACAcaagaagcagcagcagcagaacaGACCCAGCAGGAGCCACATGTAAACGAAAGCAGCACAAAACCACAGGAGGAGAAAAATGAGGAGGAAGGAGGAGGAATGGCATCGACTGATAGCAGTTTAGCAGGAAGTGATGATGAAGATGCGTAACTTCTTTAATGTCTCACTCATACATCTCAAcaccaacagtgttttcattttaaatgcctGTTAATGAATCGCATCATATTCCAAtttgactgtaaataataatttgtgaTCTGTTTTCTCTCACTTCCCCGTGTTATGATGTGTGATCCATTTGAACTTCTGTCAATATAGTTTTATAGTAAAAATCA

Function

GO:

id name namespace
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0005684 U2-type spliceosomal complex cellular_component
GO:0005686 U2 snRNP cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040426-1578 Predicted to enable RNA binding activity. Predicted to act upstream of or within mRNA splicing, via spliceosome. Predicted to be part of U2 snRNP and U2-type spliceosomal complex. Orthologous to human HTATSF1 (HIV-1 Tat specific factor 1).

Ensembl:

ensembl_id ENSDART00000079174

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005715 lncRNA upstream 23577 26628793 ~ 26629282 (+) True XLOC_002167
TCONS_00004176 lncRNA upstream 35254 26612321 ~ 26617605 (+) False XLOC_002166
TCONS_00005714 lncRNA upstream 88338 26564221 ~ 26564521 (+) True XLOC_002164
TCONS_00004172 lncRNA upstream 114222 26531877 ~ 26538637 (+) True XLOC_002163
TCONS_00005901 lncRNA upstream 379711 26269060 ~ 26273148 (+) True XLOC_002161
TCONS_00004188 lncRNA downstream 99142 26766385 ~ 26771677 (+) True XLOC_002174
TCONS_00005716 lncRNA downstream 119126 26786369 ~ 26786785 (+) True XLOC_002175
TCONS_00005717 lncRNA downstream 215459 26882702 ~ 26883139 (+) True XLOC_002181
TCONS_00004206 lncRNA downstream 306358 26973601 ~ 26976954 (+) True XLOC_002186
TCONS_00005902 lncRNA downstream 394518 27061761 ~ 27064405 (+) False XLOC_002190
TCONS_00004179 mRNA upstream 266 26645953 ~ 26652593 (+) False XLOC_002169
TCONS_00004180 mRNA upstream 934 26646104 ~ 26651925 (+) True XLOC_002169
TCONS_00004178 mRNA upstream 15366 26634472 ~ 26637493 (+) True XLOC_002168
TCONS_00004175 mRNA upstream 31670 26597990 ~ 26621189 (+) False XLOC_002166
TCONS_00004177 mRNA upstream 31913 26612321 ~ 26620946 (+) True XLOC_002166
TCONS_00004182 mRNA downstream 232 26667475 ~ 26677836 (+) False XLOC_002171
TCONS_00004183 mRNA downstream 240 26667483 ~ 26677943 (+) False XLOC_002171
TCONS_00004184 mRNA downstream 1934 26669177 ~ 26677986 (+) True XLOC_002171
TCONS_00004185 mRNA downstream 22019 26689262 ~ 26692647 (+) False XLOC_002172
TCONS_00004186 mRNA downstream 22084 26689327 ~ 26690951 (+) True XLOC_002172
TCONS_00004170 other upstream 346516 26306229 ~ 26306343 (+) True XLOC_002162
TCONS_00004166 other upstream 688460 25964284 ~ 25964399 (+) True XLOC_002158
TCONS_00004165 other upstream 692111 25948242 ~ 25960748 (+) True XLOC_002157
TCONS_00004149 other upstream 1979930 24668774 ~ 24672929 (+) False XLOC_002143
TCONS_00004147 other upstream 1988410 24660142 ~ 24664449 (+) False XLOC_002143
TCONS_00004210 other downstream 395931 27063174 ~ 27063257 (+) False XLOC_002190
TCONS_00004211 other downstream 396111 27063354 ~ 27063438 (+) True XLOC_002190
TCONS_00004216 other downstream 1493054 28160297 ~ 28162247 (+) True XLOC_002194
TCONS_00004217 other downstream 1585435 28252678 ~ 28252795 (+) True XLOC_002196
TCONS_00004234 other downstream 2599548 29266791 ~ 29268413 (+) True XLOC_002204

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000304_12375591_12385064.mRNA True 1631 mRNA 0.48 10 CI01000304 12375591 ~ 12385120 (+)