RNA id: TCONS_00009167


Basic Information

Item Value
RNA id TCONS_00009167
length 2940
RNA type mRNA
GC content 0.42
exon number 15
gene id XLOC_004628
representative True

Chromosome Information

Item Value
chromosome id NC_007123.7
NCBI id CM002896.2
chromosome length 49182954
location 17603528 ~ 17619524 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

cagaacaacacagactaGAGAGGTGCAGTTATCTTTCTGCGTGTACCAATAACAAAAAGCAAAACGTGTTTCATCGTAGTTTTTCCGGGATATTGTACTTGTTGAACCAATGAAAACGCATACCGGAGTTACTTCTTGAATGCAACATGGAGCAACAGCTATCAAAGTAACGTTAGCCACAACAAAATAAGCCGCAATGCAGCGTTTGCAAGTTAGACGTCTGATCTAGTGATCTAACGTTATATCATATCTTTAGCTATTTTAAAGATGTCAGAATTGTGCATAGAATCTGCTGGAGCCATAAAGGCAATAGACAAACAGTCCGTCCATCAGATCTGCTCAGGACAGGTGGTGCTGAGTCTGGCCACAGCTGTGAAAGAGCTGGTGGAAAACAGCATTGATGCTGGAGCTACTAATGTTGATGTGAAGCTAAAAGACAATGGCATTGAGCTGGTGGAAGTGTCTGACAATGGAAAAGGTGTTGAGGAGCAAAACTACGAGGGACTAACTTTAAAACATCACACCTCAAAACTGAAAGAATTTTCTGACCTGATACACGTGGAGACGTTCGGGTTTCGTGGTGAAGCTCTCAGTTCACTTTGTGCTCTCAGTGATCTTAGTGTTGTGACCTGTCATGAGAGTGCTCAGATTGGAGCTCGGCTGGTTTATGACCACGATGGTCGTCTCACTCAGTGTGTACCACATCCACGCCAACACGGCACTACCGTCACTCTTCAGAAGCTTTTCTCTACATTACCTGTTCGGCACAAGGAGTTCCAGCGCAACATCAAAAAGGAATATTCCAAGATGATCTTCGTCTTGCAGTCCTACTGTATCATCTCCACCGGTGTGAGGATTACATGCAGCAATCAGATGGGACAAGGAAAGCGCAGCACAGTACTGTGCACCAGTGGCAGTAATAGCATGAGAGACAATATTGGAGCTGTGTTTGGACCTAAACAGCTTCAAAGTCTGATTCCTTTTCGTCAAATATCTCCCAATGATTCAGTTAAGGAAGACTATGGCCTAGGTGGGGTAGACGTTCCAAAAGACCTTTTTAACATTGATGGGTTTGTGTCACAAGGAGATCATGGCGTTGGCCGAAGTGCTACAGACAGACAATTCTTCTTCATCAATAAAAGACCCTGTGATCCAGTAAAGGTCTCCAAGCTTGTGAATGAGGTTTATCACATGTACAATCGGCATCAATACCCTTTTGTTGCTCTGAACATCGCTGTTGCTTCAGACTGTGTCGATGTGAATGTGACCCCAGACAAACGTCAGATTCTTCTACAAGAGGAAAAACTTTTGCTGGCAATTCTGAAAAGCTCACTCATTGCTATGTTTGAGACGGGTGTCAATAAAATCAGTCTCAATCACATTTCTCCTGCGTTTACCAGCATGAGTAGACCAACTGGGACAAGTGCTTGTTCGGACGATCAAGAAATGGGCTCTGTCTCTGAAACCCTTACTTATGATGGTCCTCCCAAAACTTCCATCAATCTAGCCGGACTGAAAGAAGCATTTTCAAACCACCAGGCTCCTGGAATTGGGTCAAAACAATCTAGTCACAAAGCTGCTTGTGCTGGTCCTTCTCAAAAGAAGATGCTTTCCTTTGTGAGCTGCTCTAAAAAAGTGACTGATTTTTTACCACCTTTAAAATCGCCTACAACTTTCACCGCTGTTTCATCTATAAAACTATCAACTGTTTGTTCAGTTAAATATAAAAGCACTTTTGATAGTGATGCTGATGGTTCTGGAGCTGCAAGCCTAAAATCAGCTGAAGATTATCCAGAGATTAAACAGGAAAACCATTCTGAGTCCTTTTTACACCATGGCATAAATAAAACCGATGTTAAAGCTGAGATTGTTGATAAGCCTATGGATGAGAATTTATGGAGTTATGAAACTTTGCCTGAGACAAAGTCAGAACAACACCAGAACAGAATTTTCAGTCCTGAAGCAAAAAGAGCGAGACGGGAAGATGAACCTCCAGCACAGAACTGTTTGGTGGACTTTAAAAGCAGGAATGCCTCTCTGAAATTTGATGCACCAGTCAACATAAAGAAGAAAACAGTGCTTTTACCGTTTTCTCAGCAGGAACTTTCTAAAAGAATGCAGAGGCTACAGGCTCAGAGGACAAAGAGCAATGAACAAGAGCCGAAATACAGAAGGTTCAGGGCGAAGATTAACCCTGGAGAAAACCAGACTGCTGAGGATGAGCTTAAAAAAGAAATAAGcaaagatATGTTCAAGGAAATGGAAATCATTGGTCAATTCAACCTAGGTTTTATTATCACCAAGATAAAGTCTGACCTTTTCATTATCGACCAGCATGCCACAGACGAAAAGTACAATTTTGAAATGCTACAGCAGAACACCGTCTTAAAGGGACAGCGGCTCATTGTTCCACAAAGTCTCCATCTCCCAGCAATCAGTGAAACGGTGCTCATGGAAAACCTTGAAATCTTCAGAAAGAATGGTTTTGACTTTCTCATTGATGAGGATGCTCAGGTTATGGACCGAGTAAAGCTGGTGTCTTTACCTACAAGTAAGAATTGGACCTTTGGCCCGAATGACATTGAAGAACTCATCTTCATGCTTAGCGACAGTCCTGGAATCATGTGTCGACCTTCTAGAGTAAGACAGATGTTTGCATCCAGGGCATGTCGCAAATCGGTTATGGTTGGCACTGCCCTTAACACCAGTGAAATGAAGAAACTTGTGCTTCACATGGGAGAAATCGAACAGCCTTGGAATTGTCCTCATGGAAGACCCACCATGAGGCACCTTGCTAATCTGGATATGATTTCGCAGGactgaaacctttttttttttttgatgtgtgtaaatatattgaAAGTCACAACAACgctattgtattatttaaagattttattctttttactttgttttataatAAAGTAACTTTTTCCCATA

Function

GO:

id name namespace
GO:0006298 mismatch repair biological_process
GO:0032300 mismatch repair complex cellular_component
GO:0032389 MutLalpha complex cellular_component
GO:0030983 mismatched DNA binding molecular_function
GO:0005524 ATP binding molecular_function
GO:0016887 ATPase activity molecular_function

KEGG:

id description
ko03430 Mismatch repair
ko03460 Fanconi anemia pathway
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-030131-686 Predicted to enable ATP hydrolysis activity. Predicted to be involved in mismatch repair. Predicted to act upstream of or within cellular response to DNA damage stimulus. Predicted to be located in nucleus. Predicted to be part of MutLalpha complex. Human ortholog(s) of this gene implicated in Lynch syndrome; hereditary nonpolyposis colorectal cancer type 4; mismatch repair cancer syndrome; ovarian cancer; and urinary bladder cancer. Orthologous to human PMS2 (PMS1 homolog 2, mismatch repair system component).

Ensembl:

ensembl_id ENSDART00000111565

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00010911 lncRNA upstream 176148 17424431 ~ 17427380 (+) True XLOC_004625
TCONS_00009162 lncRNA upstream 391859 17201556 ~ 17211669 (+) True XLOC_004623
TCONS_00009160 lncRNA upstream 399134 17201527 ~ 17204394 (+) False XLOC_004623
TCONS_00010910 lncRNA upstream 728825 16742395 ~ 16874703 (+) True XLOC_004615
TCONS_00010909 lncRNA upstream 1018474 16583373 ~ 16585054 (+) True XLOC_004614
TCONS_00009169 lncRNA downstream 6826 17626350 ~ 17630707 (+) True XLOC_004629
TCONS_00010912 lncRNA downstream 96173 17715697 ~ 17739456 (+) False XLOC_004630
TCONS_00010913 lncRNA downstream 96801 17716325 ~ 17739456 (+) False XLOC_004630
TCONS_00009171 lncRNA downstream 96988 17716512 ~ 17739456 (+) False XLOC_004630
TCONS_00010914 lncRNA downstream 590347 18209871 ~ 18228004 (+) True XLOC_004635
TCONS_00009166 mRNA upstream 40825 17504559 ~ 17562703 (+) True XLOC_004627
TCONS_00009164 mRNA upstream 147445 17436904 ~ 17456083 (+) False XLOC_004626
TCONS_00009165 mRNA upstream 147457 17439580 ~ 17456071 (+) True XLOC_004626
TCONS_00009159 mRNA upstream 280187 17201522 ~ 17323341 (+) False XLOC_004623
TCONS_00009161 mRNA upstream 330796 17201548 ~ 17272732 (+) False XLOC_004623
TCONS_00009168 mRNA downstream 543 17620067 ~ 17633727 (+) False XLOC_004629
TCONS_00009170 mRNA downstream 82101 17701625 ~ 17718685 (+) False XLOC_004630
TCONS_00009173 mRNA downstream 135335 17754859 ~ 17756905 (+) True XLOC_004631
TCONS_00009174 mRNA downstream 245850 17865374 ~ 17875270 (+) True XLOC_004632
TCONS_00009176 mRNA downstream 308347 17927871 ~ 18105116 (+) False XLOC_004633
TCONS_00009163 other upstream 257861 17345550 ~ 17345667 (+) True XLOC_004624
TCONS_00009153 other upstream 642747 16960693 ~ 16960781 (+) True XLOC_004618
TCONS_00009129 other upstream 2221714 15381694 ~ 15381814 (+) True XLOC_004597
TCONS_00009115 other upstream 3499722 14102104 ~ 14103806 (+) True XLOC_004585
TCONS_00009106 other upstream 3945384 13658022 ~ 13658144 (+) True XLOC_004581
TCONS_00009172 other downstream 108018 17727542 ~ 17727651 (+) True XLOC_004630
TCONS_00009175 other downstream 308347 17927871 ~ 17941043 (+) False XLOC_004633
TCONS_00009179 other downstream 506134 18125658 ~ 18125774 (+) True XLOC_004634
TCONS_00009200 other downstream 979326 18598850 ~ 18598964 (+) True XLOC_004644
TCONS_00009203 other downstream 1061899 18681423 ~ 18699622 (+) False XLOC_004646

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000063_01089059_01094639.mRNA True 2739 mRNA 0.42 13 CI01000063 1089059 ~ 1095022 (+)
bowfin (Amia calva) AMCG00018414 True 3286 mRNA 0.52 14 CM030135.1 10150965 ~ 10159643 (+)