RNA id: TCONS_00042544


Basic Information

Item Value
RNA id TCONS_00042544
length 881
lncRNA type retained_intron
GC content 0.48
exon number 6
gene id XLOC_021398
representative True

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 1702624 ~ 1726560 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

gtgtgcgtgtctgtgtgtgtgtctgtctgattGTTTctctatagtgtgtgtgtatcaatatgtgtgtttctgtgtttatATGTGCGTGTATATGTCTCTCTCAAATGTTTCTGTGTGCGTGCAGGAGTGAGCTGTCAGTAGAGAAGAGTTCAGTTCTTCAGGCTGAGCTTCAGTCCTGCAATCAGCTGCTGGATCTCGAACCTCAGAAcaaatggtGTCTGCTGACCATCATCCTCCTGATGAGAGCTCTGGATCCTCTGGGCCATGAGAAAGAGACTCTGACCCATTTTCAAACCCTTAAAGAAGTGGATGCGATGCGCTCCTCCTACTACAGTGACCTGTGCAGTAAGTTTTTGATTGAAAACACCATCCTGAAAATGGAGTATGCAGAGGTGCGCGTCTTCAGCCTCTCCAATAAGAAACTGACCACCTTGTGTCACCTGGATCAGCTTCTGCTGGTCACACACATCAACCTGTCGTCCAATCAGCTGCAGCATCTGCCGCCTCAGTTCAGCATGCTACAGTGTCTGGAGGTGCTGGAGGCTGATGATAACGCCATCGAAAGTCTGGAGGGTCTCTATCATCTGCCTAAGCTAGAGGAAGTTTCTCTGAAGAACAACAAAATCTGCAAAGTGTCTGATCTGGAAACACTGGCGACCTGCACCAAACTGACCAGACTGGACCTGCGTGGAAACCCTGTCCACAAAACTGACGACCTGGAGTCTGAGCTCAGCCTGATCCTGCCATTGGTCACTGCCCTGTCTctctgatatgtgtgtgtgtgtacttgtttttatctcccagtggggacttaaacctgaatgcacaCAGACTTATGGGGACTTGTGTCACTGCGGGCACCAGAATTGATGGGTTAACAT

Function

GO:

id name namespace
GO:0018342 protein prenylation biological_process
GO:0018344 protein geranylgeranylation biological_process
GO:0005968 Rab-protein geranylgeranyltransferase complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0008270 zinc ion binding molecular_function
GO:0004663 Rab geranylgeranyltransferase activity molecular_function
GO:0008318 protein prenyltransferase activity molecular_function

KEGG:

id description
ko01006 Prenyltransferases
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-060929-1042 Predicted to enable protein prenyltransferase activity and zinc ion binding activity. Predicted to contribute to Rab geranylgeranyltransferase activity. Predicted to be involved in protein geranylgeranylation. Predicted to act upstream of or within protein prenylation. Predicted to be part of Rab-protein geranylgeranyltransferase complex. Predicted to be active in cytoplasm. Orthologous to human RABGGTA (Rab geranylgeranyltransferase subunit alpha).

Ensembl:

ensembl_id ENSDART00000149648

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00044764 lncRNA upstream 80012 1638289 ~ 1638981 (+) True XLOC_021396
TCONS_00042534 lncRNA upstream 566935 1147162 ~ 1152058 (+) True XLOC_021393
TCONS_00042533 lncRNA upstream 568645 1147162 ~ 1150348 (+) False XLOC_021393
TCONS_00042530 lncRNA upstream 676176 1033405 ~ 1042817 (+) True XLOC_021391
TCONS_00044763 lncRNA upstream 1121390 545263 ~ 597603 (+) True XLOC_021385
TCONS_00044765 lncRNA downstream 325399 2050901 ~ 2055246 (+) True XLOC_021400
TCONS_00044766 lncRNA downstream 737667 2463169 ~ 2467474 (+) True XLOC_021406
TCONS_00044767 lncRNA downstream 828796 2554298 ~ 2555505 (+) True XLOC_021408
TCONS_00044651 lncRNA downstream 855546 2581048 ~ 2593612 (+) True XLOC_021410
TCONS_00042561 lncRNA downstream 992482 2717984 ~ 2721386 (+) True XLOC_021412
TCONS_00042542 mRNA upstream 20562 1661743 ~ 1698431 (+) True XLOC_021397
TCONS_00042541 mRNA upstream 274158 1414893 ~ 1444835 (+) True XLOC_021395
TCONS_00042540 mRNA upstream 275212 1349277 ~ 1443781 (+) False XLOC_021395
TCONS_00042539 mRNA upstream 275212 1349277 ~ 1443781 (+) False XLOC_021395
TCONS_00042538 mRNA upstream 382124 1287910 ~ 1336869 (+) True XLOC_021394
TCONS_00042545 mRNA downstream 5161 1730663 ~ 1748141 (+) True XLOC_021399
TCONS_00042547 mRNA downstream 410842 2136344 ~ 2161478 (+) False XLOC_021401
TCONS_00042546 mRNA downstream 410842 2136344 ~ 2161478 (+) True XLOC_021401
TCONS_00042548 mRNA downstream 459895 2185397 ~ 2189062 (+) True XLOC_021402
TCONS_00042550 mRNA downstream 466271 2191773 ~ 2260732 (+) False XLOC_021403
TCONS_00042520 other upstream 1276641 442237 ~ 442352 (+) True XLOC_021384
TCONS_00042519 other upstream 1306334 412542 ~ 412659 (+) True XLOC_021383
TCONS_00042509 other upstream 1405674 309063 ~ 313319 (+) False XLOC_021378
TCONS_00042508 other upstream 1469893 240604 ~ 249100 (+) True XLOC_021377
TCONS_00042596 other downstream 1995539 3721041 ~ 3735009 (+) False XLOC_021425
TCONS_00042666 other downstream 4551673 6277175 ~ 6304274 (+) True XLOC_021459
TCONS_00042675 other downstream 5100186 6825688 ~ 6825802 (+) True XLOC_021466
TCONS_00042706 other downstream 7582072 9307574 ~ 9308561 (+) True XLOC_021488
TCONS_00042716 other downstream 7892711 9618213 ~ 9618335 (+) True XLOC_021493

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00011862 True 1441 mRNA 0.58 12 CM030138.1 5987777 ~ 5995655 (+)