RNA id: TCONS_00040193


Basic Information

Item Value
RNA id TCONS_00040193
length 1916
RNA type mRNA
GC content 0.41
exon number 2
gene id XLOC_020213
representative False

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 9917007 ~ 9923692 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GGAAGATTCTTGTCAGTCTGCAAGTGGAGGGAGAACACAGAGAAAATGAGTGATCCAGAAACCAGCATAATGGACCAAGAAGACCTAAGTGATCTGATGGAAGAGAGCGAGGAGAGTGAAGAAATGAGTGAAGTGGAAAAGAAGCGGCGTCATGTCAAAACACCAAAAACATCACAAACTAAAAGTGCCCAAAAGACTTTCAAGTgtcctcagtgtgggaagaaatTTGCACGAAAAAGTGGCCTTACTGCTCACgtgaaaatccacactggagagaaaccgttctcGTGCAaagagtgtgggaagagtttttcgAGTAGCGGATACATTAAGAGACACATGATCATTCACTCCGGAGAGAAGCCGCACACGTGTGATCAGTGCGGTAAAAGTTTTGGACTTGCAAGTAGCCTTAAATCCCACGCTGCAGTTCATTCTGAAGAAAAACCATTCAAGTGTGATCATTGCGGTGACAGTTTTCGTTGGTTATCTAGTCTGAGGGACCACCTGAAAACTCATGGCAAGAAAGAGACTCACGTGTGTTCTGTGTGCGGAAAGAGCTTTGCTCAattgattcttttaaaaaaacacaagaaaagaCACGAAGTGAAGAACTTCATGTGTTTTGAGTGCGGGAAGACCTTTGTAAGAAATTGTGAACTGAAACAGCACCAGAGAGTTCACACCGGAgaaaaaccgtacaagtgttcacactgtgacaagagatTCAGTAACGGATCGTCTAAAGTAGTACAtgagaggatccacactggagaaaggcCGTACTCGTGTGATCAATGTGGGCACGCGTTTAGACACACACACGCCCTCGAGTCTCACAAGCGAATCCACACGGGAGAGAAATCATACACTTGTGATCAATGCGGGAAGAGTTTTACACAAAAAGCAAGCCTTAGAATTCACAAGAAATTTCACAATGCAGAGAAACCGCACACATGCGATcaatgcgggaagagtttcacacTTAAAACAagccttaatgaacacatgaagatccacactggagagaagccgcaCACGTGTGATCAGTGCGGGAAGAGATTCAGTAGGTTAAGCTTGCTTAAATTACATCTGGCCACCCATTCTGTAATCAGACCATATCGCTGTGAGAAGTGCGGCAAAGGCTTTACTTGGGAATCATGCCTGAAGAACCACCTGAAAACTCATTCAGAGGAGAAGCCTCATAAGTGCTCCGTCTGCGGTAAAGGTTTCCGTCTGGCAAATAGTTTACGATCACACCAGAAAAGACACACCGGTGTAAAGAATCACATGTGCTTTGATTGTGGGAAGACCTATTTTACGAAGAATGAACTGAAGCTGCACCAGAAAGTTCATTCAGGAGGAGAGTTCTACAAGTGTTTACACTGCGACATGACATTCAAGCGGTTAGATTATGTGAAAAACCACGAGAAGACCCACACTGTGAGGAGCGATCCATCTGAAAGCTCAGAAGAGGATTAACAATGAAGTAAGCGGTCTGCCCTtcatgtgggaagagtttttctTCTGTTCaagtcaaacataaaaaaaacatggtttaaaAATCACATTGAACTTCAAAATGTgtcaaattatgtttataaaagCTGCATTTTTTGTATGATTCATAACAGAAATATcattgatagttgttgtttcaaGTGTAAGATTCAGAACAACTCAACTCCTCCCTCAATATAACGATTTCTCTTAACCCTATGCTTTTATAATATTAGTAGCCTATTAGATAACCTAGATTATTTTACATTATGAAGTTggaaatgattgtattttcatctCAGGAACCTGGAAAAGGTTTTCACGTTTTTATTTTTGTGGTTGAAATATCCACATCTTGTCTTCTTTTCTTGAAGTGTTTTGTTTATCTTTTATGCCAATAAAGAACAGTCTGTTTT

Function

GO:

id name namespace
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0060026 convergent extension biological_process
GO:0005634 nucleus cellular_component
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid 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

KEGG: NA

ZFIN:

id description
ZDB-GENE-050721-1 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Acts upstream of or within convergent extension. Predicted to be active in nucleus. Is expressed in blastoderm; hematopoietic system; hypoblast; and mesoderm.

Ensembl:

ensembl_id ENSDART00000177953

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00042068 lncRNA upstream 14249 9897971 ~ 9904623 (+) True XLOC_020212
TCONS_00042067 lncRNA upstream 14374 9886745 ~ 9904498 (+) True XLOC_020211
TCONS_00040181 lncRNA upstream 127505 9782954 ~ 9791367 (+) False XLOC_020205
TCONS_00042066 lncRNA upstream 467646 9437629 ~ 9451226 (+) False XLOC_020198
TCONS_00042065 lncRNA upstream 482888 9429876 ~ 9435984 (+) False XLOC_020198
TCONS_00042069 lncRNA downstream 66214 9989905 ~ 9991494 (+) True XLOC_020216
TCONS_00042070 lncRNA downstream 95209 10018900 ~ 10049233 (+) True XLOC_020219
TCONS_00042071 lncRNA downstream 149729 10073420 ~ 10095290 (+) False XLOC_020221
TCONS_00042072 lncRNA downstream 151174 10074865 ~ 10095290 (+) False XLOC_020221
TCONS_00041885 lncRNA downstream 234772 10158463 ~ 10164865 (+) False XLOC_020223
TCONS_00040191 mRNA upstream 38464 9872323 ~ 9880408 (+) True XLOC_020210
TCONS_00040190 mRNA upstream 40503 9871326 ~ 9878369 (+) False XLOC_020210
TCONS_00040189 mRNA upstream 45673 9871238 ~ 9873199 (+) False XLOC_020210
TCONS_00040187 mRNA upstream 50165 9862243 ~ 9868707 (+) False XLOC_020209
TCONS_00040195 mRNA downstream 16210 9939901 ~ 9945637 (+) True XLOC_020214
TCONS_00040196 mRNA downstream 57388 9981079 ~ 9984032 (+) True XLOC_020215
TCONS_00040197 mRNA downstream 71142 9994833 ~ 10003688 (+) False XLOC_020217
TCONS_00040198 mRNA downstream 71142 9994833 ~ 10006999 (+) True XLOC_020217
TCONS_00040199 mRNA downstream 86601 10010292 ~ 10014369 (+) True XLOC_020218
TCONS_00040182 other upstream 129068 9787067 ~ 9789804 (+) True XLOC_020205
TCONS_00040167 other upstream 535388 9359899 ~ 9383484 (+) True XLOC_020197
TCONS_00040142 other upstream 1132579 8786167 ~ 8786293 (+) False XLOC_020180
TCONS_00040140 other upstream 1149479 8766367 ~ 8769393 (+) True XLOC_020179
TCONS_00040135 other upstream 1219639 8695096 ~ 8699233 (+) False XLOC_020176
TCONS_00040207 other downstream 235467 10159158 ~ 10164164 (+) False XLOC_020223
TCONS_00040218 other downstream 570564 10494255 ~ 10513982 (+) True XLOC_020229
TCONS_00040220 other downstream 630037 10553728 ~ 10558972 (+) True XLOC_020230
TCONS_00040228 other downstream 749460 10673151 ~ 10678490 (+) False XLOC_020234
TCONS_00040250 other downstream 1738926 11662617 ~ 11674637 (+) True XLOC_020251

Expression Profile

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