RNA id: TCONS_00006240


Basic Information

Item Value
RNA id TCONS_00006240
length 3163
RNA type mRNA
GC content 0.48
exon number 12
gene id XLOC_003161
representative True

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 3211826 ~ 3272020 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GGGGGGCTGATATTGAAGAGCGTGCGGGATCTCGGGTCTCTGGAGGAAATCTCTTCATCAGTGCTGGTGTGGTCATCAGTGCACGCGGTCATCATGTGGACATCTCTCATCTTCCTCATCCTCAGCCTCGCATCAGGAGCTCTTTCACAATCCCGAACTCGATTTGCACGTTATCGTTCATGGAATTCACAGATGTATCCGGTCTGGAGGGACGGAGATCCCAGATACAGAGACTGCTGGAAGGGTGGCGAGGTGACAATTGAAGTCAGAAGTGATTCTCCAACACTGACTGGAGCAAAAGCCTCTTTCAACATCGATGTTCGTTTCCCGCAGAACCAGACGGTTCTCCCTGATGGACAGGTGGTGTGGGCCAGAAACTGCACTGTAAATGGAACATCATATACTATGGGCCAGTCTGTGTATCCTGAATCCAGTATCCCTCAAGACTGGAGCGGCGTTTTTCCTGACAGGACACCCTTCAACAGGACCTCCAACAAAAAGCCACGCTTCATCTATGTGTGGAAAACATGGGGAAAATACTGGCAGGTGGCTGATGGTCCTTCTTCTCTGCTGAGCATTGACACAAACAGCGTGCCTCTTGGTTCTTACAGCATGGAAGTGGTGATTTACCACTGCCGCGGCAAAGACAAGTTCATTCCCCTTGGTTATGTATCCACTCAGTTCTCCATCACTGACCAAATTCCCTTTGCAGTGACTTTGTCCCAAGTTGGTGACATCAACCAGGGTGACCAAAACTTTATCCAGAACCGAGCCGTGGCCTTCAGCATTAATCTGCACGACCCCAGCAGTTATCTCAGCAGCTCAGACATCACCTTCAACTGGGATTTCGGTGACAATAGTGGCACTCTGATCTCTCGGGAAACTACCGTAACCCACACATACCTCACGCCCGGATCCTTCAGGCCACAGGTGATTTTGATGGCCGCCATCTCTACTGGTTGCCCAGTCAATCCAACTCCAGCAGTCACCGTTGATCCTCCTGCTCCAGTTACAGATGAAGGTACAGCACTGGATACCATTGTGGTCGCAGTTTCTCCTCAACCAGTTGATGTCATTCCCAATGCAGAGGAGGGAGTTGCAGCCAACGCCACTGTTGTTGCTAATGACTTAGCAGTGGCAGAAACTgatccagttgacccagcagacACTGTTGACACAACTGATGCTGTGGCTGAAGCCGACAATACTGCTGTGGTTGAAGGAACTGTAGCTACTGAGGCTGAACTTGCGGCTGAAGCTGAAAACACTGCTACAGATGCATTAGCTACACCTGCAGTTATAGAAGCCGAAGCTGCAGCCGAAGCTGAAAACACTGCTACAGATGCATTAGCTACACCTGCAGTTATAGAAGCCGAAGCTGCAGCCGAAGCTGAAAACACTGCTACAGATGCATTAGCTACACCTGCAGTTATTGAAGCCGAAGCTGCAGCCGAAGCTGAAAACACTGCTACAGATGCATTAGCTACACCTGCAGTTATTGAAGCCGAACCTGCAGCCGAAGCTGAAAACACTGCTACAGATGCATTAGCTACACCTGCAGTTATTGAAGCCGAACCTGCAGCCGAAGCTGAAAACACTGCTACAGATGCATTAGCTACACCTGCGGTTACTGAAGCCGAACCTGCAGTCGAAGCTCCAGCAGCTGAGATCGATCTGGCAGCCACGGTTCTCCCAGAAGCCGCTGCTGCAGCGGTCGACACCACCTCAGTCCAGACGGCTCTTGAACCAGTGGCCCCGACTGGAGATGCAGTGGTCGCTAATGTTGCAGAAGACACAGTTATCGAAGCCGCTGCTGAAGCCGATGACGCAGCCAACGCAATCACTGGTGTAACTAGCATCCCTGAGGCAGCAGTGACCGAGTTGGAAGCCGAATTGGTGGCAGGAACTGAAGCAACTCAGGCCGCACTAATCATTGCAAAGCGGCAAGCACCAGAAATGCCAGCAGAAGCTAGCTGTATGGTTTATCGTTATGGATCCTTCTCTACTACTCTTACAGTTGTCCAGGGGATAGAGAGTGTTGAGATTGTGGAGGTGAATAATGTGGTGATGCTGGCCACAGAGCTGGAGCAGAACGCGGTGGATCTCACAGTCACATGTCAGGGAAGTCTCCCAAATCAAGTGTGCACCGTGGTGTCAGACGCAGACTGCATCAGCCCAGTTCAGACCCAGTGTAATGACGTGACTCCGACCCCCGAGTGTCAGATTGTGCTCAGACAGTTTTTCAACAACTCCGGCACCTTCTGCATCAACGTGTCTCTGACCAACGACGTCAGCTTGGCTGTGACCAGCGCACGGCTCAATGTGGCTATAGGCAAACACAAACTCATCGAGGAACACGGCTGGAGCGACACTCGGAGTTCTGTTTTTCGTTTGTGCTTTGGCGGCCATTGCTTTTACATACAAGCGGTTTAAGGAGTACCATCCACTGAGAGAAGAAAGCGAGGGCAGCGGTTTTGCTTCAGGAATAAGCGCAGTACCTTCGATGCTGTGGAGCTTTCTGAACCGGAGATCGACTGCCGAGAGCCGTCCACTTCTGCTGGGACGCGTGGTGTGAAAACAGCCATAATGCATCACCTGTACAGTCTCTTGATAAGAAAATTTAACAAGCCTATTAACAAGAGGTCCTTATTGTACTGTAATAACAATGTCATGTGCAAAAATATCATATGCAGCATGAATCGAGTAATCCAAATAAAGTATGGTGGTTGCACATGTTGTAAAAACAGATACTTCTGCTTTATTTGGTCTACAGTCACACTACAAAAAATGCTTCATGTACTGTTTTTATAATTgctttagtccaaatatctaaaaaatcttaaatctaaaGCATTTTCATGCaaggaaaaacttttttttctgaaaacaagctaaataatctttaatgtttattttgctcattttacTAATAATCTTGTGTATTTttgacatttgtttattttttttcagacagaccttttttttttgtctagaacagagatgcccaaactagggccaaagttggcccatggtaacctttgatttggcccgccatcccatctgagaatagAGGAAGAATGTTTAGAGattgtctttttaaatgtaatgtaatcttttgtttgtttgttaaaagctaattgaaaataaatgttttaattaaata

Function

GO:

id name namespace
GO:0048478 replication fork protection biological_process
GO:0000076 DNA replication checkpoint biological_process
GO:0043111 replication fork arrest biological_process
GO:0006281 DNA repair biological_process
GO:0031298 replication fork protection complex cellular_component
GO:0005634 nucleus cellular_component
GO:0000228 nuclear chromosome cellular_component
GO:0003677 DNA binding molecular_function
GO:0042803 protein homodimerization activity molecular_function

KEGG:

id description
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-030131-9818 Predicted to enable ATP binding activity and metal ion binding activity. Acts upstream of or within several processes, including amyloid fibril formation; melanocyte differentiation; and melanosome organization. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in melanosome. Predicted to be integral component of plasma membrane. Is expressed in several structures, including eye; immature eye; neural crest; notochord; and pigment cell. Orthologous to human PMEL (premelanosome protein).

Ensembl:

ensembl_id ENSDART00000159459

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00008516 lncRNA upstream 47826 3203487 ~ 3206698 (+) True XLOC_003160
TCONS_00008381 lncRNA upstream 323950 2930179 ~ 2930574 (+) True XLOC_003157
TCONS_00006228 lncRNA upstream 425849 2827553 ~ 2828675 (+) True XLOC_003156
TCONS_00006224 lncRNA upstream 524086 2710557 ~ 2730438 (+) False XLOC_003154
TCONS_00006213 lncRNA upstream 638501 2615070 ~ 2616023 (+) True XLOC_003149
TCONS_00008517 lncRNA downstream 59093 3331113 ~ 3333714 (+) True XLOC_003164
TCONS_00006252 lncRNA downstream 314009 3586029 ~ 3590937 (+) True XLOC_003168
TCONS_00008518 lncRNA downstream 343730 3615750 ~ 3735803 (+) True XLOC_003169
TCONS_00008519 lncRNA downstream 499246 3771266 ~ 3783125 (+) True XLOC_003170
TCONS_00006257 lncRNA downstream 754259 4026279 ~ 4086851 (+) True XLOC_003173
TCONS_00006237 mRNA upstream 5066 3211827 ~ 3249458 (+) False XLOC_003161
TCONS_00006238 mRNA upstream 5066 3246059 ~ 3249458 (+) False XLOC_003161
TCONS_00006235 mRNA upstream 5407 3211826 ~ 3249117 (+) False XLOC_003161
TCONS_00006234 mRNA upstream 5407 3211826 ~ 3249117 (+) False XLOC_003161
TCONS_00006232 mRNA upstream 58642 3006124 ~ 3195882 (+) True XLOC_003158
TCONS_00006241 mRNA downstream 7019 3279039 ~ 3289796 (+) False XLOC_003162
TCONS_00006242 mRNA downstream 9879 3281899 ~ 3291771 (+) True XLOC_003162
TCONS_00006243 mRNA downstream 36636 3308656 ~ 3318747 (+) True XLOC_003163
TCONS_00006244 mRNA downstream 227091 3499111 ~ 3525259 (+) False XLOC_003165
TCONS_00006245 mRNA downstream 227117 3499137 ~ 3521095 (+) False XLOC_003165
TCONS_00006233 other upstream 77754 3176686 ~ 3176770 (+) True XLOC_003159
TCONS_00006226 other upstream 506727 2745064 ~ 2747797 (+) True XLOC_003154
TCONS_00006215 other upstream 605130 2633791 ~ 2649394 (+) False XLOC_003150
TCONS_00006199 other upstream 1063794 2190621 ~ 2190730 (+) True XLOC_003138
TCONS_00006172 other upstream 1708293 1546117 ~ 1546231 (+) True XLOC_003126
TCONS_00006246 other downstream 227170 3499190 ~ 3514108 (+) False XLOC_003165
TCONS_00006254 other downstream 693707 3965727 ~ 3968309 (+) True XLOC_003171
TCONS_00006260 other downstream 2209733 5481753 ~ 5481884 (+) True XLOC_003176
TCONS_00006262 other downstream 2259423 5531443 ~ 5531576 (+) True XLOC_003178
TCONS_00006273 other downstream 2608555 5880575 ~ 5923741 (+) False XLOC_003185

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01090161_00001086_00005102.mRNA True 1452 mRNA 0.49 6 CI01090161 1086 ~ 5102 (+)