RNA id: TCONS_00008928


Basic Information

Item Value
RNA id TCONS_00008928
length 3499
RNA type mRNA
GC content 0.52
exon number 31
gene id XLOC_004457
representative True

Chromosome Information

Item Value
chromosome id NC_007123.7
NCBI id CM002896.2
chromosome length 49182954
location 2804505 ~ 2848288 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTGCGCATGCGCGGCTCAGTTTGAAGCCCTGACTGGCTGCTCTTCAGGATGGCCGCGGATAACAATGTGCTGCTGGGTTTAGTGGAAGAATTCGTGTCCGGACAGGTTGATAGCAAGGCTGCAGACACGTCGACAGgtgTCAAGAACGGGCAGTTCACAGTTCTCCAACTGGTTGAAGCATTGGGGGTGAGTTTGACCAGCTCTCAGCCTCAGACTCGTGGCAGAGGAGTTCAGCTGCTTTCTCAGGTTTTGCAGGAATGCTACAGCGGCCTGTCAGAGCGCGAGGTGGAGGTCCTGATAGCGTTCTATGAAAACAGACTGAAGGATCACTATGTTATCACTCCACATGTTCTTCGAGGGCTCAAAGCTTTGGCTAAATGCTCCGTTCTGCCTCCCGGTTCAGCGGTGTCCATTTTGAAATCCATCTTCCAGGATGTTCACGTTCAGTCCCTGATGGTGACGGAGAGATCATGTGTTTACAACATTCTTATCAGTCTGATGGAGTCCAGAGAGGAAGAGCTCAAAGGTTTGGGCGCAGACTTCATCTTTGGATTCGTACAGTCAGTGGATGGAGAACGAGATCCACGCAACCTCCTGCTGGCCTTCCAGGTGGCCAAGAACATCATTTACCGGGGTTATGATCTCGGTAAATTTGTAGAGGAGCTCTTTGAAGTGACGTCCTGTTATTTCCCCATAGACTTCAGCCCTCCACCCAACGATCCTCATGGAATCACACAGGAAGAGCTTATTCTTTCTCTACGGGCTGTTCTGACCGGGACGCCTCGGTTTGCGGAGTTTCTGTTACCATTGATCATCGAGAAGATGGACTCGGATGTTCAGAGCGCTAAAGTGGACTCCATGCACACACTGGCTGCCTGCGGTCAGACATACAGCCATAAAGAGCTGGCTGAATTCCTTCCAGGCCTTTGGAGCTCAATACGGAGAGAGgtTTTCCAGACGGCCAGTGAGAGGGTGGAATCGGCTGGTCTTTCGGCTCTGAGCTCACTAGTGTCCTGTCTATCCCGTTCTGTGCTTAATTCTGACTCGGAGGATTCACTGCAAGTCTTTCTGAACCTTGTCcttaaagACTGCCAGCATCATCTCTGTGAGCCGGACCTGAAGCTGGTGTGGCCGAGCGCTAAACTCTTGCAGGCCGCAGCCGGAGCCTCATATAGAGCCAGTCTAATCGGGACGCAGGCCGTCATTCCTGCCTTGCTGGACCAATACAATAACAGGACACAGTGTGCTCAGCGGCGCACCCTTCTGGAGGTTCTGCAGGGTTTCGTTCAGCCCACTCCGCTCAGCCGGCCTGCAGATGGAGagGAGAGTGTGTTGGTTGCGTTTCAGCAGTCGTTATGCACTGTGGTGTTTTCTGCATTAAGCGAGACGAGCGCTGGTCTGCAGGTCACAGCCACACGAGTGCTCACTGCACTATCACAGCAGCCAGGCTTGCTGTCTCAGACCGATGTCGAAAACGCTGTTGATCATTTGACCAGACTCATTTTAGAAGAAGAGGAGGCTCAAGTCAGTTTGGCAGTGGTGGAGTGTTCAGGCTCTCTGGCTCATCTGCATCCCCATGCCTTCGTCTCCAGGATGATTCCTCAGCTGAAGGAAAAGATCCTGTCAGATGAGTGTAGTGGTGCAGTACGTCGGCGGTGTGTTGCAGCTTTAGCGTCAGTATCCTCTCAGCCCAGCGTGGTGCAGGAGAGCTCTCCGGTTCTTCTCCAGGTGCTGACATCAGCCCACACAGGCTGCTGCGGTTTCTCTGTGGAGGAAGTGATCGCCGTGTGCATCAGTTTGCAGAGGATAGCAGTGCATGCTCGCGATAATGAGGCGATTGGCCAATTCTTCCATGACATCATCATCCCGCGACTCCTAGGGCTGACTTTACAGGCGGCGCTGCAGAGTAAAGACTCCGGTCACATCAGTCCACTCACAGATGAAGCCGTTCTGTCTGCTATCGTCCCTGTGATCAGCACAGCCTGTGCCGCTCTAAAACCAGAATCGGCTTCTCGTATGGCGGCCCAGGCAGTTTCTTTGTTTCTGGATGGAGACACATCCTTTCTGCCAGAAAATGCCTTCCCTTCACAAATCCAGCCACTTCAGAGTCAGGCAGACTCCCGGGGGCCGTCTCAGCTGGTGTGTTTACTGATGGCCTGCGTTTGCTCTCTTCCACGCAGTGTGGAGATTCCTGACATGGACCGGCTTCTGGTGCAGCTGGAGGATCTGAGCTGTACATCTCCACATCTGTTTTCTTACACTTTTGCATCAAAATGCATCGCTGGTCTGGTCAACAAGAGGCCGGCAGgagcggCTCTGAACGCAGTGCTGGACCGAGTGTTAAAGAGGGTCAGTCTGGAGCTGGAGGAAACGTCATCCACGCACAGAACACAGGCCTTCACACTGCTGATCTGGgtggcCAAAGCTCTGCTCTTACGGTACCATCCGCTGTCAACAGCCCTGACCGACAAGCTCTTCTCTCTGTTGAGTGACTCTGCGTTGGGATCTCTGGTGGCTGATGGTTTCTGTGTCCTCATGAACGACTCGCCGGATGTGCTCAATCGAGATTGTCATGCTGACGTTCGCATCATGTACAGACAGCGCTTTTTCACTGAGAACTCAAGCAAGCTGGTTCAAGGTTTCAACTCGGCAGAGCAAGCAAAGAAGTCTTGCTATTTGAAAGCGCTGTCACACATCGTCAATAACCTACCTAGAGAAGTGCAATTGACGGAGCTTCCTGCGTTGCTGCCGCTGCTATTGGAGGCTCTGTCGTGTGTGGATCAGGGTGTTCAGTTGTCCACACTCTCCTGTCTTCAGCCAGTGTTGCTGGAGTCTCCTGCAGCTCTCAATACTCAGCTGGAGGCCCTGTTCACTCGTCTGCTCGCCCTCACCACCAGCCCTGCCAtgAAAGTGAGAATGGCGTCGCTCCGCTGTGTCCATGCTCTGTCTCGTCTGCCTGAACATATGgtcaTGCCGTTCCGTGCCCGAGTCCTGAAGGCTCTCGCTGCTCCTCTGGATGATAAGAAGAGGCTGGTGAGGAAGGAGGCCGTAGCGGCTCGAGGAGAATGGTTTTTGTTAGGAAGTcctggtggaagatgaacaacAGGTCAGTGCTGCTATCAAACCAAGAGCCCAGAACAGAGATGATCACCGCTCACAGCCTTTCATTTTACTCCTCtatcctctttttttttaatgagttagtCCTGTTTGGGCATAGAGATTGCTCAACAAACTGCGTAAACTGAAGCCCTTTTCAGCCGGACCTTCAACAACTAATGCTGAAAGGAGAACACCTCCACTCGTCTTTACAGGAACGCAAGTCTGATGCAGAATAAAACAACCCATCGCCCTGAATGTGCCGTCGACGGTCCTTATGGTAGGATTTGTTAGTCTGTTGTCCATTTTCGCAAGACTAACCTAAAAGTCTAACGGAGAAAACTGATGCCAAGAATATAAAACAGTATTTAAGTGTCAATAAACCTTTTGTAAATGTGTA

Function

GO:

id name namespace
GO:0006974 cellular response to DNA damage stimulus biological_process
GO:0097428 protein maturation by iron-sulfur cluster transfer biological_process
GO:0016226 iron-sulfur cluster assembly biological_process
GO:1905168 positive regulation of double-strand break repair via homologous recombination biological_process
GO:0006281 DNA repair biological_process
GO:0071817 MMXD complex cellular_component
GO:0097361 CIA complex cellular_component
GO:0005856 cytoskeleton cellular_component
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component

KEGG:

id description
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-120316-2 Predicted to be involved in several processes, including iron-sulfur cluster assembly; positive regulation of double-strand break repair via homologous recombination; and protein maturation by iron-sulfur cluster transfer. Predicted to act upstream of or within cellular response to DNA damage stimulus. Predicted to be located in cytoplasm. Predicted to be part of CIA complex and MMXD complex. Orthologous to human MMS19 (MMS19 homolog, cytosolic iron-sulfur assembly component).

Ensembl:

ensembl_id ENSDART00000152193

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00010865 lncRNA upstream 32115 2769565 ~ 2772390 (+) False XLOC_004456
TCONS_00010866 lncRNA upstream 32115 2769589 ~ 2772390 (+) False XLOC_004456
TCONS_00010867 lncRNA upstream 32115 2769591 ~ 2772390 (+) False XLOC_004456
TCONS_00010868 lncRNA upstream 32115 2769600 ~ 2772390 (+) False XLOC_004456
TCONS_00010869 lncRNA upstream 32115 2769626 ~ 2772390 (+) True XLOC_004456
TCONS_00010870 lncRNA downstream 147599 2995887 ~ 3019556 (+) False XLOC_004459
TCONS_00008935 lncRNA downstream 155682 3003970 ~ 3008922 (+) True XLOC_004459
TCONS_00010871 lncRNA downstream 1137791 3986079 ~ 3991423 (+) False XLOC_004469
TCONS_00010872 lncRNA downstream 1137806 3986094 ~ 3991423 (+) False XLOC_004469
TCONS_00010873 lncRNA downstream 1137903 3986191 ~ 3991423 (+) False XLOC_004469
TCONS_00008927 mRNA upstream 59859 2677303 ~ 2744646 (+) True XLOC_004455
TCONS_00008926 mRNA upstream 76281 2676878 ~ 2728224 (+) False XLOC_004455
TCONS_00008925 mRNA upstream 134349 2665081 ~ 2670156 (+) True XLOC_004454
TCONS_00008924 mRNA upstream 141034 2660733 ~ 2663471 (+) True XLOC_004453
TCONS_00008923 mRNA upstream 153229 2648043 ~ 2651276 (+) True XLOC_004452
TCONS_00008929 mRNA downstream 22383 2870671 ~ 2895802 (+) True XLOC_004458
TCONS_00008930 mRNA downstream 145235 2993523 ~ 3019847 (+) False XLOC_004459
TCONS_00008934 mRNA downstream 147599 2995887 ~ 3019556 (+) False XLOC_004459
TCONS_00008933 mRNA downstream 147599 2995887 ~ 3019556 (+) False XLOC_004459
TCONS_00008932 mRNA downstream 147599 2995887 ~ 3019556 (+) False XLOC_004459
TCONS_00008894 other upstream 2282683 509947 ~ 521822 (+) True XLOC_004427
TCONS_00008960 other downstream 1649076 4497364 ~ 4497479 (+) True XLOC_004480
TCONS_00008972 other downstream 2203274 5051562 ~ 5051697 (+) True XLOC_004492
TCONS_00008973 other downstream 2204155 5052443 ~ 5052578 (+) True XLOC_004493
TCONS_00008974 other downstream 2208933 5057221 ~ 5057356 (+) True XLOC_004494
TCONS_00008975 other downstream 2213279 5061567 ~ 5061697 (+) True XLOC_004495

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000047_06154118_06181771.mRNA True 3280 mRNA 0.53 31 CI01000047 6154118 ~ 6181892 (+)