RNA id: TCONS_00006823


Basic Information

Item Value
RNA id TCONS_00006823
length 497
lncRNA type retained_intron
GC content 0.50
exon number 3
gene id XLOC_003479
representative True

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 25539698 ~ 25550845 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CCAGTGTGCTTGAATATTATTCCATAGTCacataaagtaattattttaatcagCACTGTAGAGCTCTAAGGGTGTCTCACAATATCACATTTGCAATCACTTGACTTCATACTGTGTCAATCTGTGCAGTCGCATCTATGAAATCCTCCCGCAGCGCATCCAACAGTGGCAGCAAAGCCCTTGCATTGCGGAGGAGCAGGGTAAAAAACAGCTGGAGCGCATCCGCCGAGAGCAGCAGGCCGCACGTATGCGCCTGGCAGAGATGGAGCGCCGTTTCCACGAGCTGGAGGGCATCATTGCCAAAGCCAAGCAGCAGCTGGTCCTTCAGGATGAGGACGTGAATGAAACAGACAGTGAGGACACAGACCTTCAGATCTTCTGTGTGTCCTGTAGTCACCCCGTCAACCCCAAGGTGGCACTCAGGCATATGGAGAGATGTTATGCCAAGtatgaaaGCCAGACGTCTTTCGGTTCCATTTTCCCAACTAGAATAGAAG

Function

GO:

id name namespace
GO:0030097 hemopoiesis biological_process
GO:0001568 blood vessel development biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0032776 DNA methylation on cytosine biological_process
GO:0048188 Set1C/COMPASS complex cellular_component
GO:0046872 metal ion binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030728-4 Predicted to enable DNA binding activity and zinc ion binding activity. Acts upstream of or within DNA methylation on cytosine; blood vessel development; and hemopoiesis. Predicted to be located in nucleus. Predicted to be part of Set1C/COMPASS complex. Is expressed in retinal cone cell and retinal photoreceptor layer. Orthologous to human CXXC1 (CXXC finger protein 1).

Ensembl:

ensembl_id ENSDART00000147815

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006816 lncRNA upstream 65617 25481107 ~ 25482237 (+) False XLOC_003476
TCONS_00006818 lncRNA upstream 65617 25481115 ~ 25482237 (+) True XLOC_003476
TCONS_00008402 lncRNA upstream 288857 25256812 ~ 25258997 (+) False XLOC_003467
TCONS_00008615 lncRNA upstream 288857 25257132 ~ 25258997 (+) False XLOC_003467
TCONS_00008613 lncRNA upstream 319659 25182092 ~ 25228195 (+) False XLOC_003466
TCONS_00008616 lncRNA downstream 280824 25829370 ~ 25830337 (+) True XLOC_003487
TCONS_00008617 lncRNA downstream 639971 26188517 ~ 26196145 (+) True XLOC_003489
TCONS_00008618 lncRNA downstream 677536 26226082 ~ 26234069 (+) True XLOC_003490
TCONS_00006845 lncRNA downstream 847367 26395913 ~ 26398030 (+) False XLOC_003492
TCONS_00006846 lncRNA downstream 848093 26396639 ~ 26398487 (+) True XLOC_003492
TCONS_00006820 mRNA upstream 28017 25504215 ~ 25519837 (+) False XLOC_003478
TCONS_00006821 mRNA upstream 28193 25508129 ~ 25519661 (+) True XLOC_003478
TCONS_00006819 mRNA upstream 45363 25485774 ~ 25502491 (+) True XLOC_003477
TCONS_00006815 mRNA upstream 64648 25481046 ~ 25483206 (+) False XLOC_003476
TCONS_00006813 mRNA upstream 67817 25477643 ~ 25480037 (+) False XLOC_003475
TCONS_00006824 mRNA downstream 11526 25560072 ~ 25576199 (+) False XLOC_003480
TCONS_00006825 mRNA downstream 11549 25560095 ~ 25560828 (+) False XLOC_003480
TCONS_00006826 mRNA downstream 12086 25560632 ~ 25576198 (+) True XLOC_003480
TCONS_00006827 mRNA downstream 35404 25583950 ~ 25615084 (+) False XLOC_003481
TCONS_00006828 mRNA downstream 47492 25596038 ~ 25618583 (+) True XLOC_003481
TCONS_00006817 other upstream 64884 25481107 ~ 25482970 (+) False XLOC_003476
TCONS_00006814 other upstream 69436 25477743 ~ 25478418 (+) True XLOC_003475
TCONS_00006802 other upstream 245297 25296376 ~ 25302557 (+) False XLOC_003469
TCONS_00006788 other upstream 419992 25096197 ~ 25127862 (+) False XLOC_003464
TCONS_00006785 other upstream 507217 25038273 ~ 25040637 (+) True XLOC_003461
TCONS_00006838 other downstream 529401 26077947 ~ 26078061 (+) True XLOC_003488
TCONS_00006853 other downstream 1056065 26604611 ~ 26614587 (+) False XLOC_003495
TCONS_00006865 other downstream 1971910 27520456 ~ 27520573 (+) True XLOC_003503
TCONS_00006890 other downstream 3803555 29352101 ~ 29352221 (+) True XLOC_003521
TCONS_00006893 other downstream 4018201 29566747 ~ 29571528 (+) True XLOC_003523

Expression Profile

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