RNA id: XM_026928745.2


Basic Information

Item Value
RNA id XM_026928745.2
length 4285
RNA type mRNA
GC content 0.46
exon number 22
gene id csde1
representative False

Chromosome Information

Item Value
chromosome id NC_047602.1
NCBI id CM018548.1
chromosome length 30442583
location 13838338 ~ 13868120 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

AGCCCAATCTCATTAAACCTCGTGCGCGAGTGTGAAATATCGCGATAGTCCCCACTCATCCTCACTACGTAATGTGCCGTGCTGCTTATGGCGGCGCTGGTGACAGTGCTGAAAGCTGTTGGGTATGAAGTGAAAAAGAACTGACTTTTGTACCATCTGAAACTCCTACTTCAAGTTCAGATCAATCGGAAGAAACAAATCAAGGAAAAAAACGAAGAACACGCCTGAAAACGACCCAATGACGCACCAGTTTTGAAGAAAAGCCTAGACCGAACTTCAACCCCAACGACCAAACTAAGCAACCAAAGAAATATAAAGACGGCTACGCCTGACGCAACCGACCATCAACGTTAACCGCAAAGACGATTTGTGATCTGAGACAAGAAGTTTGTGCCTACTCAACAGCTTTGACAAAGCACACGTCCCAACGCTGCTCCAAGCCCTCCTTATCCTCCCCGCACTTCCACTCCACTGGGGTGCGGAGTGGGCTGCTGTCTGCTAGTttaactttctttctcttcctgttaTTTCGCGCTGTTCATCTTGTCCCAACCAGTGTTCTCACACCTGCATTTGccttgtttctttatttcttttgtccttttttcttcttatttttttggaagctttttttcaaattagaacGTGTTCCAGACATCCGAGGAAAACAAAAGTGTGCGTGTACTTAAGAACAAAGAGATTAAATCTTTGGCTCAGTGTTAAGTGTGACGTCAAAACACCATATCAAGCCATCTAAGCAAGATGAGTTTCGACCCAAGCCTACTGCATAGCAATGGCTTTGCTAACGGCACTGGAGTGGGCCTCCGGGAGACTGGTGTGGTGGAGAAGCTGCTTAGCTCCTACGGCTTTATCCAGTGCTCGGAGAGACAGGCTCGCCTGTTCTTCCACTGCTCCCAGTACAATGGCAACCTGCAGGAGCTCAAGATTGGAGATGATGTGGAGTTTGAGGTGTCGTCTGACAAGCGCACAGGCAAACCAATTGCTGTGAAGCTGGTAAAGATCAAGGCCGAAGTCCTGCCCGAAGAACGAATCTCTGGGCAGGTGGGACCAGACTTGCACGCCTCTCCCTTTACTATGCTGCATGGTTATATACATCCAGTTGTCTCAGCCATCCCCAACCACCTGGATGGAAGGTCTGCTCCTGGCCAGGTCCCCACCGGCAGTGTGTGCTATGAGAGAAACGGGGAAGTGTTTTATCTCACTTACACCCCTGACGATGTGGAGGGCAACCAACAACTGGAAACAGGAGATAAAGTCAGCTTCTACATGGAGACTAACAAGCACACTGGAGCTGTCAGTGCCCATAACATCATGTTGGTCAAGAAGAAGCCGATGAGGTGCCAGGGGGTGGTGTGTGCCACTAAGGATGCATTTGGATTTATTGAGCGAGCGGACGTGGTGAAAGAGATCTTCTTTCACTACAGTGAGTTCAAGGGTGACCTGGAGGCACTGCAGGCTGGAGATGATGTGGAGTTTTCCATTAAGGAccgaaatGGGAAAGAGGTTGCTACGGATGTTCGTCTGCTTCCCCCAGGCACGGTTATATTTGAAGATATCAGTATTGAACAGTTTGAGGGCACGGTCACCAAGGTTATCCCTAAAGTTCCCACCAAGAATCAGAATGACCCGTTACCTGGACGAATTTGTGCAAGGATTAATTTCAGCCAAAAGGAGCTTCTGTTCGGGGAGAAAGACACAAAGTCCAAAGTGACACTTTTGGAAGGAGACCATGTCCAGTTCAACATTTCCACTGACCGTCGAGACAAGCTTGAGCGAGCTACAAACATTGATATACTGCCTGACACCTTTCACTTTACTAAGGAGTCTCGTGAAATGGGTGTGATCGCTGCAATGCGTGATGGGTTTGGCTTTATTAAGTGTGTGGACCGTGATGCTCGAATGTTCTTCCACTTTAGTGAGGTTTTGGAGGAGAGCCCACTGCACATTTCAGATGAAGTGGAGTTTACTGTTGTCCCTGACATGCTGTCAGCCCAGAGGAACCATGCAGTGCGGATCAAGAAGCTGCCCAAGGGCACAGTGTCTTTCCACACACAGTCTGAACAGCGCTTTCTGGGTGTTGTGGAGAAGGAGGCCACAGCTGCCTCCAATGGCAAGACTAATGCCAGCCCCAACAAGGGTAAAGAGAAGAAAAAAGATAAGGCTAAAGTTGAGAAGgaagcaGAGGAAGGCGTGATTGTGTATGAAGACTGTGGAGTGAAGCTGACTGTACCCTATCATATCAAAGACCTAGAGGGCGGAGTGCTCCCTCAAGTTGGAGATAAGGTGGAGTTTGCAATCAGCGAAGTAAAGCGTACTGGCCAGCAGAGCGCTGTCTCCATCAAGATCTTAAACCGCACCACTAATACCAAGAGGCTCCTGGGCTACATAGCGACACTTAAAGACAACTTTGGCTTTATCGAAACCGCCAATCATGACCAAGAGATCTTCTTTCACTTCAGTGAGATGTGTGGTAATATGGACAACCTGGACCTGGGAGATACGGTCGAATACACTCTGTCTAAGGGCAAAGGGAACAAAGTCAGCGCTGAGAAGGTCACCAGAGTCCCACATGtGAATGGACTGGGTGAGGACATTGGCAGTACTCTGTTTTCGGGAAAGGTGATCCGGCCCCTGCGTAGTGTGGATCCATCTCAGACTGAATACCAAGGACTTATTGAGGTAACAGAAGAAGGCTCCAGTAAAGGTCAGAATTACCCATTCGGAATCGTTAGCATGACCAGTAAACGAGATTGCCTGCAGAAAGGGGAGATGGTGAAGTTTCAGCTGTGTACCGTGCCTCAGACAGGACAGAGGATGGCATGCAACGTCGTTCCACAGCGTAGAGCTTTGGTGGAATGTGTTAAAGACCAGTTTGGTTTCATCACGTATGAGGTAGGCGAGAGTAAGAAGCTGTTCTTCCACATGAAGGAGGTGCAGGACGGCTTGGAGCTCCAGGCTGGAGATGAAGTGGAGTTCTCGGTTATCCTGAACCAGCGCACGGGAAAGTGCAGTGCCTGCAATGTCCGCAGAGTCAGCGAGGGTCCTAAAGCAGTGGCAACACCTCGCCCTGACCGCCTGGTGAACCGCCTGAAGAGCATCACCCTGGACGATGCCAGCGCCCCGCGTCTGGTGATCATTCGACAACCCCGGGGCCCTGATAATTCAAAGGGCTTTAATGTGGAGAGGAAACCTCGCCAGGCCGGCGTGATTGACTGATCTACTATTTGCTGCTCCTCCCTCTCCACATTGACAACACCTCAGAGAAAAGAAGCAATCAAGACTAAAGGACAGGGAAGGGATTTGCACTGTTATAAACATCAataagacacatgaagccacacacacaaacacatacacacaccctcacccTGTCCCAAAATCCCTTCCAAAAGAATCGAAcatctcctctgacctttcatATTAGTGTGGTTTTTGCGCATTTGTCATCAATGATGATTCCTTGgttgtgtgtgcgtatgtgtgtgttctgtgtgttatCTCGagtattttttaagaaaatgtaagAGCAGTGTGTTGACAGTGTTGGAGATAAATGGGATTTGGTGGTTCTGCCACCTGATGATGGCTAATGTGTTTCCATCTCAGCTCAAAATGAAATTGTGTGGAATTCTGCACCCGCTCCCCCTCCCAAAATCATATTTTCCCTCTATCTTCTGAAAAATTTCTTATACTTTTTGGACATTTGTTTACTCGCTCCTATCACTTGACACCCACTCACCATGTTAAACAACTTCCAAATCAAGTGTTTTACCCTGACACAAGCTGTGTTCATGTACCtttcccttttttatttctgctctATTGTTCAGCGCATCTTTTACAACCACTCTGGTCTGAAATATCACTGTGCTTAAGAAGGCTCATGTATACCATTtgtctgaatgatttttttttttttttctcctaagtGAGTTTATTTTGATCAAgttctgtatgtttttgttttaatagcTGTGCTTGGTTTCGCCCCATCCTTCCATGTGTCGTCTTCTGCTTTCAGGTGCAGAATTCCTAATAGCTTCTCATATTTTGCAGTCCttttatattgttttctttttcattgcACACAcatcttttgcttttttgctttttatttttaaaaattcaatttaatatgCTTCTaacaagtaaaataaaagtaagatTAAGGTGCCTAAAGactctaaataaaacaaacaaaaaaaaaaaaccccaaccaCACAATAGAGGTATGCTCTATTCCCGGACAATTGCCAAAATATAT

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0003677 DNA binding molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU156120 lncRNA upstream 38722 13794582 ~ 13799616 (+) True G132138
TU156118 lncRNA upstream 44033 13793156 ~ 13794305 (+) True G132136
TU156121 lncRNA upstream 45629 13791862 ~ 13792709 (+) True G132139
TU156119 lncRNA upstream 47059 13790471 ~ 13791279 (+) False LOC113527348
TU156088 lncRNA upstream 267366 13570392 ~ 13570972 (+) True G132115
TU156341 lncRNA downstream 23090 13891210 ~ 13948808 (+) False dock8
TU156342 lncRNA downstream 119613 13987733 ~ 14022649 (+) False aopep
TU156369 lncRNA downstream 142383 14010503 ~ 14013621 (+) True G132357
TU156411 lncRNA downstream 217532 14085652 ~ 14087881 (+) True G132391
TU156373 lncRNA downstream 248855 14116975 ~ 14120415 (+) True G132361
XM_026930414.2 mRNA upstream 5041 13823098 ~ 13833297 (+) False porcnl
XM_026937501.2 mRNA downstream 5426 13873546 ~ 13877960 (+) True apex2
XM_026925627.2 mRNA downstream 10991 13879111 ~ 13885667 (+) False lrif1
XM_026925618.2 mRNA downstream 11329 13879449 ~ 13885667 (+) False lrif1
XM_026925635.2 mRNA downstream 11542 13879662 ~ 13885667 (+) True lrif1
XM_026913277.2 mRNA downstream 22284 13890404 ~ 13948280 (+) True dock8
TU156117 other upstream 130788 13705256 ~ 13707550 (+) False LOC113527348
trnae-cuc_18 other upstream 468719 13369548 ~ 13369619 (+) True trnae-cuc_18
trnaf-gaa_25 other upstream 774216 13064050 ~ 13064122 (+) True trnaf-gaa_25
trnav-cac_9 other upstream 776330 13061936 ~ 13062008 (+) True trnav-cac_9
trnad-guc_1 other upstream 1456268 12381999 ~ 12382070 (+) True trnad-guc_1
TU156645 other downstream 454052 14322172 ~ 14323450 (+) True G132595
trnae-cuc_19 other downstream 1111713 14979833 ~ 14979904 (+) True trnae-cuc_19
TU157849 other downstream 2133941 16002061 ~ 16011604 (+) False G133631
TU157866 other downstream 2133941 16002061 ~ 16018783 (+) True G133631
XR_004578524.1 other downstream 2534628 16402748 ~ 16419509 (+) False si:ch211-166a6.5

Expression Profile