prpf38a (prpf38a)


Basic Information

Item Value
gene id prpf38a
gene name prpf38a
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035909.1
NCBI id CM008312.1
chromosome length 44161018
location 41343422 ~ 41347799 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007258342.3
CCCACTATCAGTCCAGCAGCAGGGCGCTTTAGAGGAAGTGGGTTGTGTTCCGGCGTGAGCGCGTTTCATTCATCAGTTCTCTGGTGGAAATGGCGAACAGAACAGTGAAAGATGCGAACAGTATACACGGAACTAACCCCCAGTACCTGGTGGAGAAAATTATCCGCACTCGAATCTACGAGTCCAAATACTGGAAGGAAGAGTGTTTCGGTCTCACAGCTGAGCTTGTTGTGGACAAAGCAATGGAACTGAAGTTTGTCGGAGGAGTGTATGGCGGAAACATCAAACCCACACCTTTCTTATGTCTGACGCTGAAGATGCTCCAGATTCAGCCTGAGAAGGACATCATTGTAGAATTCATCAAGAACGAAGATTTTAAATATGTCCGCTTGCTTGGAGCAACGTATATGCGCCTGACTGGCACCTCAGTGGACTGTTATAAGTATTTGGAACCGTTGTACAATGACTACAgaaaaatcaaaacacagaaccGAAATGGAGAGTTTGAGATAATGCATGTGGACGAGTTTATAGACGAGCTGCTTCATGCCGAGCGAGTGTGTGATGTCATCCTCCCTAGGCTCcagAAGAGGCAAGTCCTGGAGGAAGCTGAGCTTTTAGATCCGCGTATCAGTGCCCTTGAAGAAGACCTGGATGAGGTGGAGTCCagtgaagaagaagacgaagaagaggAGAAGcCGGAAAGAGTACAGACACCAGAGCCACACAGACGGAGTTACAGAGATATGGATAGACCTCGCAGATCTCCCTCTCCTCGCTACAGACGAAGCCGATCGCCCAGAAGACGAAGCAGATCCCCCAAGAGACGAAGCCCATCACCCAGACGTGAGCGAGAACGGGATCGCCACCGCAGCAAGAGTCCCCGCAGACACCGCAGTCGGTCCAGAGACAGGAGGCACCGCTCCAAATCTCCAGGTCATCACAGAAGCCACAGACATCGCAGTCATTCAAAGTCTCCAGAAAGCCGCTCAAAGAAGAGTCACAAGAGGAGTCGAAGAGGAAACGAGtgatttttctacatttttttgtagattttttttatgtaatgcttgtatggtaatgtgtatataaaaaaaatatgatgtgAATCTTTTTCTCAACTGATTGGAGTCACACAAGTTTTTTGATGCTGTTTATTCTTTTAAGTCATTTTGAGTGGAAATATTTTTCATCCCATCAATTGTAGTTCATTATTAAAGTGTTTCAGCAGCCCTCTTGTAATAAACAGTTTATCTACGTGTAAATTATGAAaagattttactcaaataaactgTTGTTACAGTGACGGTACATgtcaatttttttgtaaataaaatcaagTGCTAAATACTGTGCAAATAAGGCTCAAATGGGTCAGTCTGTGAGGTATTAGCCTGACCACGTGACCGGGGTCTCCTTTTGTGCATCatgataaatacattttaacaacaCATTTACCATGAAGTAATTTGACTAAAAATTGCAGCCCAAGTTATTTTGATAACATCTGTTTTATTGTGAAATGCATCACTTTTGAGGAATGTTTTCCTAATGATCGTGATTGGAACATAATCCCTTACTTCATTTGTAAAATGTGATGAGTTTTGGAATTTGTACCTTGTAGATCAGAGTTTTACAAACTTGAGAAAGGTAAAACTTGGAAAGTTTTAAAAAGTGGGTCACTAAAGATCATTAGCATGATTTGTCAGAAGTGGCTAACACAATACAATCATTTTATGATTTGAAGGCAACTACTTGGCTAATGTAAAGCTTTAAACCATATACTGCCTTTGTCAGAGCAATACTTTAATGGTAATAAATGTATTCATGAA

Function

symbol description
prpf38a Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within RNA splicing and mRNA processing. Predicted to be located in nucleus. Predicted to be part of U2-type precatalytic spliceosome. Orthologous to human PRPF38A (pre-mRNA processing factor 38A).

NR:

description
pre-mRNA-splicing factor 38A

GO:

id name namespace
GO:0006397 mRNA processing biological_process
GO:0008380 RNA splicing biological_process
GO:0005681 spliceosomal complex cellular_component

KEGG:

id description
K12849 PRPF38A; pre-mRNA-splicing factor 38A

RNA

RNA id representative length rna type GC content exon number start site end site
XM_007258342.3 True 1832 mRNA 0.42 10 41343422 41347799

Neighbor

gene id symbol gene type direction distance location
mpl NA coding upstream 19804 41308576 ~ 41323618 (+)
tie1 tie1,LOC107731644,LOC107684058 coding upstream 38193 41282851 ~ 41305229 (+)
tmem125 tmem125,LOC108440199,LOC107725195,LOC107684333,LOC107551025 coding upstream 127155 41194102 ~ 41216267 (+)
LOC103041612 LOC108440175 coding upstream 217851 41121126 ~ 41125571 (+)
slc35d1 slc35d1,slc35d1a,LOC108441641,LOC108272060,LOC107724140,LOC107758361,LOC107684099 coding upstream 545486 40786228 ~ 40797936 (+)
pik3r3 pik3r3,LOC107692397,LOC107717145,LOC107594617,LOC106584012,LOC107556985 coding downstream 138662 41486461 ~ 41801791 (+)
gpbp1l1 gpbp1l1,LOC107731630,LOC107551044,LOC107725200 coding downstream 742190 42089989 ~ 42099620 (+)
ccdc17 NA coding downstream 754142 42101941 ~ 42113536 (+)
LOC103033178 adcyap1r1b,LOC108441855,LOC108271541,LOC107692394,LOC107731652,LOC107717143 coding downstream 869715 42217514 ~ 42270031 (+)
zc3h3 NA coding downstream 1035129 42382928 ~ 42481727 (+)
G117370 NA non-coding upstream 7637 41332201 ~ 41335785 (+)
LOC111193789 NA non-coding upstream 36511 41305323 ~ 41306911 (+)
G117324 ap1m3,LOC108441657,LOC108271949,LOC103463064,LOC106528254,LOC107724146,LOC103137203 non-coding upstream 109569 41226175 ~ 41233853 (+)
G117299 NA non-coding upstream 251430 41091501 ~ 41091992 (+)
G117183 NA non-coding upstream 522092 40817176 ~ 40821330 (+)
G117379 NA non-coding downstream 3152 41350951 ~ 41352350 (+)
G117474 NA non-coding downstream 431152 41778951 ~ 41784207 (+)
G117396 NA non-coding downstream 454604 41802403 ~ 41873492 (+)
G117508 mast2 non-coding downstream 544401 41892200 ~ 41897363 (+)
G117530 nasp,LOC107683970,LOC107731628 non-coding downstream 783784 42131583 ~ 42137890 (+)
fam183a NA other upstream 177263 41159187 ~ 41166159 (+)
LOC103033994 LOC103033994,LOC108441647 other upstream 534877 40799471 ~ 40808545 (+)
G116997 NA other upstream 1984034 39358871 ~ 39359388 (+)
LOC103036266 LOC108441345 other upstream 2948892 38390277 ~ 38394530 (+)
gabra5 gabra5,LOC107711088,LOC107673539,LOC107585151,LOC107685289 other upstream 3731100 37524851 ~ 37612322 (+)
pomgnt1 pomgnt1,LOC102776429 other downstream 5702 41353501 ~ 41367729 (+)
G117642 NA other downstream 1004008 42351807 ~ 42355784 (+)

Expression


Co-expression Network