ush1c (ush1c,LOC107675293,LOC106561052)


Basic Information

Item Value
gene id ush1c
gene name ush1c,LOC107675293,LOC106561052
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035904.1
NCBI id CM008307.1
chromosome length 27092187
location 11805817 ~ 11834740 (-)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_015600969.2
cacacacacacacacacacacattaacgtTACCCAGCGAACGACAGGAGAAGGAGCGAGgcgatacacacacagatacacacacacggCGGAAAAGCTCTGTTTTTGTCATGGAGCGAAAAGTAGCTCGAGAATTTCGTCACAAGGTTGAGTTGCTGATTGATAATGAGGCAGAGAAGGATTACCTGTATGATGTTCTGCGCATGTACCATCAGTCTATGGAGCTACCTGTTCTGGTGGGGGACTTGAAGCTGGTGATCAATGAACCAAACCGTTTACCTCTGTTTGATGCCATCCGTCCTCTCATTCCTCTCAAACACCAGGTGGAGTATGACCAGCTTACTCCCAAGAGGTCCAGGAAGCTAAAGGAGGTGCGTCTGGATCGCATGCACCCTGAAGGCCTGGGCCTGAGTGTACGAGGTGGGCTGGAGTTCGGCTGTGGACTCTTCATCTCCCAGATTGTCAAAGATGGACAGGCTGGAAACGTGGgccttcagGTGGGGGATGAGATTGTTCGCATCAATGGCTACTCTATATCCTCCTGCATCCACGAGGAGGTTATCAACCTTATCAAGACCAAGAAAATTGTCTCACTGAAAGTCAGACATGTCGGAATGATCCCAGTTAAGAGCTCCTCTGAGGATCCTTTGAAGTGGCAGTTTGTGGACCAGTTTGTTTCTGAATCAGGAGAGAAGAAGAACAGTATTGCTGGCATGGCCTCATTAGGAGGAAAAGAGATTAAAGAGAAGAAGGTGTTCCTCAGCCTTGTTGGTACCACAGGCATGGGCATCAGCATCTCGAGTGGTCCCACTCAGAAGCCCGGGATCTACATTAGCAACGTAAAGCCTGGTTCTCTGTCAGCAGAAGTGGGCTTACAGGTTGGTGACCAGATTGTCGAGGTCAATGGGGTGGATTTTACTAACGTGGATCACAAAGAGgCAGTTCGAGTGCTGAAGAGCAGCAGGAGCCTCACCATCACTGTCCTCACTGGGGCTGGCAGCGAGTTGTTTATGACAGATGAAGAGAAGCTGGCAGTGGAAGCTCGGCGGGAGCTGGATCGTCAGGAGCTCATGCACCAGAAGAGAGTGGCCCTGGAGACCAACAAGATCATCAAAGAGCAGCAAGAGAAAGAGCGCCAGAGAAAGATGGAGATTTCACAGAAGACTGCAGATGAAGAGGAACGATACAGAAAGGAGATGGAAGTGATTGAAGCTGCTGAGAGAAAGCACAACAGAGAGTGGGAAGAAGACTGGGGTTCTAGAGGGAGGTCCAAAAGCCCATCCCCTGCTCCTTCTCCTCCACCCCCATCCCATTCCCCACCTCCTTCCAAACCCAGGAGCTCTGCTGCTGAAGCTGATGCTCTTGATGACGAAAGGGAAGAAGAGAGCAGAGAAGGATTCCAGAAATACGTGGATGACTTTGACCCGTACTCCATGTTCACCCCTGACCAGATAGTTGGGAAAGATGTGCGGCTGCTGAGAATTAAGAAGGTTGGGAATCTGGACCTGGCTGTAGAAGGCGGAGTTGACTCTCCACTGGGAAAGCTTGTAGTTTCAGCTGTTTATGAGGGAGGCTCGGCTGACAGGCATGgTGGGGTGGTACCAGGGGATGAGATCATGGCGGTCAATGGAAAGATTCTGACAGATGTGACCTTGACTGAAGGGCAGAACTCTTTAGCCCGAGCCTACAACAGTGGAGGGgATTGGATCGATCTGGTCATAGCTGTGTCTCCGCCAAAAGAATATGAAGATGAGGTGACCTTCTTCTAAGTCCCGTTCTCTCAGCCTGTGGAAACATGAGGACCAGAAGTATTCAAGCAACATTCCTGTGTCTGTTTTTGTTAAgtagttttaataaaatatgtgtaaaaatgttcaGTTTGTAAAGATAGATCACATGTTCACAGAAAAATGGTCACACATACTACATTTATACATTGTATATTGTCATGATCACTTTTCAAGAGAATGTGGGTGTGGCAGTTATGGATTACAGTGTGTGATACAGTAgaaatgaatggaccaaaataaatgcattaaaattacttggaataaaTTTTTCACAGACTGATA
>XM_022672128.1
cacctctcacacacacacacacacacacacattaacgtTACCCAGCGAACGACAGGAGAAGGAGCGAGgcgatacacacacagatacacacacacggCGGAAAAGCTCTGTTTTTGTCATGGAGCGAAAAGTAGCTCGAGAATTTCGTCACAAGGTTGAGTTGCTGATTGATAATGAGGCAGAGAAGGATTACCTGTATGATGTTCTGCGCATGTACCATCAGTCTATGGAGCTACCTGTTCTGGTGGGGGACTTGAAGCTGGTGATCAATGAACCAAACCGTTTACCTCTGTTTGATGCCATCCGTCCTCTCATTCCTCTCAAACACCAGGTGGAGTATGACCAGCTTACTCCCAAGAGGTCCAGGAAGCTAAAGGAGGTGCGTCTGGATCGCATGCACCCTGAAGGCCTGGGCCTGAGTGTACGAGGTGGGCTGGAGTTCGGCTGTGGACTCTTCATCTCCCAGATTGTCAAAGATGGACAGGCTGGAAACGTGGgccttcagGTGGGGGATGAGATTGTTCGCATCAATGGCTACTCTATATCCTCCTGCATCCACGAGGAGGTTATCAACCTTATCAAGACCAAGAAAATTGTCTCACTGAAAGTCAGACATGTCGGAATGATCCCAGTTAAGAGCTCCTCTGAGGATCCTTTGAAGTGGCAGTTTGTGGACCAGTTTGTTTCTGAATCAGGAGAGAAGAAGAACAGTATTGCTGGCATGGCCTCATTAGGAGGAAAAGAGATTAAAGAGAAGAAGGTGTTCCTCAGCCTTGTTGGTACCACAGGCATGGGCATCAGCATCTCGAGTGGTCCCACTCAGAAGCCCGGGATCTACATTAGCAACGTAAAGCCTGGTTCTCTGTCAGCAGAAGTGGGCTTACAGGTTGGTGACCAGATTGTCGAGGTCAATGGGGTGGATTTTACTAACGTGGATCACAAAGAGgCAGTTCGAGTGCTGAAGAGCAGCAGGAGCCTCACCATCACTGTCCTCACTGGGGCTGGCAGCGAGTTGTTTATGACAGATGAAGAGAAGCTGGCAGTGGAAGCTCGGCGGGAGCTGGATCGTCAGGAGCTCATGCACCAGAAGAGAGTGGCCCTGGAGACCAACAAGATCATCAAAGAGCAGCAAGAGAAAGAGCGCCAGAGAAAGATGGAGATTTCACAGAAGACTGCAGATGAAGAGGAACGATACAGAAAGGAGATGGAAGTGATTGAAGCTGCTGAGAGAAAGCACAACAGAGAGTGGGAAGAAGACTGGGGTTCTAGAGGGAGGTCCAAAAGCCCATCCCCTGCTCCTTCTCCTCCACCCCCATCCCATTCCCCACCTCCTTCCAAACCCAGGAGCTCTGCTCTCAACTGGTTTTACCGTTATGAAGGAAAGTTGCCTACTCTCAGAAAGaaaggaaaagagaccaaaaagaaaaagaagaagatgtCCAAGACAGACACGCTCCAGGGAGAACgaaagagcaagaaagaaaTGGAGTTTGAGCTGAAGTTGGCCAAAGAGAAGGAGGAGATTCTAGAACGAGAGAAACAGATGAAAATCAGTCGACTCTTGCAGGAGGTATCTGAGACGGAACGAGAGGATCTGGAGGAATCGGAGAAAGTGCAGAACTGGGTGGAGAAGCTCTGCCAGACTAGACTGGAGCAGATCTCCTCAGTGGAGAATGATTCTCCTGAGATGTCTCCAACTCGTTCTCCCATGGTTGTGAGAAGATTCCCCGGAGGTCTGCAGCTGGCCACGACCGACCTGGACGACATCAACCTCGATGATGTGGACGAGAGTCTGAGAAAGCCTCTGAAAAGACTGGCTCCTACTCCGCCCACATCCACCCAACCCCCACCACCTTTACCTCTTCCCCCACCCTCACCTCGCCTCCACCAAACCTCTATCCACCCCTCTCCTTCACCCAGACCCTCCTTGACTCCATCCCGCCCTGCTCCCCCCTCCCCTAGAATGCCTCCTCAGCGTCCACCTTCTCCACCCGCTTCCAGGGTGCATCCGTCTTCAATCAGTCGAGCAAGGCATCCCATTCCTCCTTCCCGAATTCAACCTCAGCCTTCCTCCTGGGCTACATCATCCTCTcaccctccacctcctccaccaccccctcctcctcctccccaccaccacctccacctcctcctccaccacagCACGAAGAGGACAAGTACCACACCGTGCCGCCCAGATACCGGCGCCTCTCCGAAAATGAATGGGAGGGCAATGGCTTCAGGCAGCGAGGGGGCTTCCACATGAACGCGTCCAGTAATCCTACCTACCCTGGTGGTGCAAAGGTTATGAGAAACACTTCTCATGCCAGCAGAATATCAACGTCCAGCAATTCACTGGTGAGCCATATACCCTCTGCTTTGATCAGAGGATGCTTGCAGTTTGTGTATCGGAGCCCCTTGAAGTTAATTCATAGTGGACCCTGTGTTCATATTGGATGCAGTGTGCTTATTGACTTTTTTCCTTTA
>XM_022672129.1
cacctctcacacacacacacacacacacacattaacgtTACCCAGCGAACGACAGGAGAAGGAGCGAGgcgatacacacacagatacacacacacggCGGAAAAGCTCTGTTTTTGTCATGGAGCGAAAAGTAGCTCGAGAATTTCGTCACAAGGTTGAGTTGCTGATTGATAATGAGGCAGAGAAGGATTACCTGTATGATGTTCTGCGCATGTACCATCAGTCTATGGAGCTACCTGTTCTGGTGGGGGACTTGAAGCTGGTGATCAATGAACCAAACCGTTTACCTCTGTTTGATGCCATCCGTCCTCTCATTCCTCTCAAACACCAGGTGGAGTATGACCAGCTTACTCCCAAGAGGTCCAGGAAGCTAAAGGAGGTGCGTCTGGATCGCATGCACCCTGAAGGCCTGGGCCTGAGTGTACGAGGTGGGCTGGAGTTCGGCTGTGGACTCTTCATCTCCCAGATTGTCAAAGATGGACAGGCTGGAAACGTGGgccttcagGTGGGGGATGAGATTGTTCGCATCAATGGCTACTCTATATCCTCCTGCATCCACGAGGAGGTTATCAACCTTATCAAGACCAAGAAAATTGTCTCACTGAAAGTCAGACATGTCGGAATGATCCCAGTTAAGAGCTCCTCTGAGGATCCTTTGAAGTGGCAGTTTGTGGACCAGTTTGTTTCTGAATCAGGAGAGAAGAAGAACAGTATTGCTGGCATGGCCTCATTAGGAGGAAAAGAGATTAAAGAGAAGAAGGTGTTCCTCAGCCTTGTTGGTACCACAGGCATGGGCATCAGCATCTCGAGTGGTCCCACTCAGAAGCCCGGGATCTACATTAGCAACGTAAAGCCTGGTTCTCTGTCAGCAGAAGTGGGCTTACAGGTTGGTGACCAGATTGTCGAGGTCAATGGGGTGGATTTTACTAACGTGGATCACAAAGAGgCAGTTCGAGTGCTGAAGAGCAGCAGGAGCCTCACCATCACTGTCCTCACTGGGGCTGGCAGCGAGTTGTTTATGACAGATGAAGAGAAGCTGGCAGTGGAAGCTCGGCGGGAGCTGGATCGTCAGGAGCTCATGCACCAGAAGAGAGTGGCCCTGGAGACCAACAAGATCATCAAAGAGCAGCAAGAGAAAGAGCGCCAGAGAAAGATGGAGATTTCACAGAAGACTGCAGATGAAGAGGAACGATACAGAAAGGAGATGGAAGTGATTGAAGCTGCTGAGAGAAAGCACAACAGAGAGTGGGAAGAAGACTGGGGTTCTAGAGGGAGGTCCAAAAGCCCATCCCCTGCTCCTTCTCCTCCACCCCCATCCCATTCCCCACCTCCTTCCAAACCCAGGAGCTCTGCTCTCAACTGGTTTTACCGTTATGAAGGAAAGTTGCCTACTCTCAGAAAGaaaggaaaagagaccaaaaagaaaaagaagaagatgtCCAAGACAGACACGCTCCAGGGAGAACgaaagagcaagaaagaaaTGGAGTTTGAGCTGAAGTTGGCCAAAGAGAAGGAGGAGATTCTAGAACGAGAGAAACAGATGAAAATCAGTCGACTCTTGCAGGAGGTATCTGAGACGGAACGAGAGGATCTGGAGGAATCGGAGAAAGTGCAGAACTGGGTGGAGAAGCTCTGCCAGACTAGACTGGAGCAGATCTCCTCAGTGGAGAATGATTCTCCTGAGATGTCTCCAACTCGTTCTCCCATGGTTGTGAGAAGATTCCCCGGAGGTCTGCAGCTGGCCACGACCGACCTGGACGACATCAACCTCGATGATGTGGACGAGAGTCTGAGAAAGCCTCTGAAAAGACTGGCTCCTACTCCGCCCACATCCACCCAACCCCCACCACCTTTACCTCTTCCCCCACCCTCACCTCGCCTCCACCAAACCTCTATCCACCCCTCTCCTTCACCCAGACCCTCCTTGACTCCATCCCGCCCTGCTCCCCCCTCCCCTAGAATGCCTCCTCAGCGTCCACCTTCTCCACCCGCTTCCAGGGTGCATCCGTCTTCAATCAGTCGAGCAAGGCATCCCATTCCTCCTTCCCGAATTCAACCTCAGCCTTCCTCCTGGGCTACATCATCCTCTcaccctccacctcctccaccaccccctcctcctcctccccaccaccacctccacctcctcctccaccacagCACGAAGAGGACAAGTACCACACCGTGCCGCCCAGATACCGGCGCCTCTCCGAAAATGAATGGGAGGGCAATGGCTTCAGGCAGCGAGGGGGCTTCCACATGAACGCGTCCAGTAATCCTACCTACCCTGGTGGTGCAAAGCAAATGGCCCCAAGCCCTCCATCCCAGAGGAGACAGATAAACCCAGTCATGTCAAAACCAGTCATGCTGCCCCAATCTCAAACCCCAAACAGACCTGTATTACGCCCAGAACCCACGGTGAGTCTgagattgagtgtgtgtgtgtgttgattagGGCTGTGTGTTGGCAAGAACTTGGTAATACGATACGTATCATGATACAGgggttgcatttaaatatacagctctagaaaaaataaaaggctactt

Function

symbol description
ush1c Predicted to enable actin filament binding activity. Acts upstream of or within neuron development; startle response; and synapse organization. Predicted to be part of stereocilia ankle link complex. Predicted to be active in plasma membrane and stereocilium tip. Predicted to colocalize with photoreceptor connecting cilium and photoreceptor inner segment. Is expressed in brain; hair cell; pleuroperitoneal region; sensory system; and trunk musculature. Used to study Usher syndrome. Human ortholog(s) of this gene implicated in Usher syndrome; Usher syndrome type 1; Usher syndrome type 1C; and autosomal recessive nonsyndromic deafness 18A. Orthologous to human USH1C (USH1 protein network component harmonin).

NR:

description
PREDICTED: harmonin-like isoform X5

GO:

id name namespace
GO:0046549 retinal cone cell development biological_process
GO:0060122 inner ear receptor cell stereocilium organization biological_process
GO:0050808 synapse organization biological_process
GO:0001964 startle response biological_process

KEGG:

id description
K21877 USH1C; harmonin

RNA

RNA id representative length rna type GC content exon number start site end site
XM_015600969.2 False 2071 mRNA 0.48 21 11805817 11834731
XM_022672128.1 False 2487 mRNA 0.52 19 11817439 11834740
XM_022672129.1 True 2553 mRNA 0.52 19 11817026 11834740

Neighbor

gene id symbol gene type direction distance location
abcc8 abcc8 coding downstream 1782 11739962 ~ 11804035 (-)
LOC111193095 NA coding downstream 29678 11767509 ~ 11776139 (-)
kcnj11 kcnj11,LOC107758740 coding downstream 66446 11737283 ~ 11739371 (-)
LOC103038359 NA coding downstream 721138 11049697 ~ 11084679 (-)
tmem86a tmem86a,LOC107707555,LOC107709947,LOC107688565 coding downstream 777167 11008621 ~ 11028650 (-)
LOC103031503 tnnt3b,LOC108428830,LOC108275000 coding upstream 109685 11944425 ~ 11953789 (-)
LOC103031193 LOC108428829 coding upstream 122830 11957570 ~ 11996201 (-)
LOC103034366 tnni2,LOC103034366,LOC108428827,LOC107742057 coding upstream 198549 12033289 ~ 12036047 (-)
LOC103035544 LOC107742058,LOC107675302,LOC107595230,LOC107758756,LOC107549283,LOC108275297,LOC107675455 coding upstream 201935 12036675 ~ 12041062 (-)
LOC111193054 NA coding upstream 508735 12343475 ~ 12348986 (-)
G72974 NA non-coding downstream 70971 11734144 ~ 11734846 (-)
G72967 mob2,LOC108411394,LOC108274974 non-coding downstream 72668 11694678 ~ 11733149 (-)
G72881 NA non-coding downstream 574139 11231179 ~ 11231678 (-)
G72857 NA non-coding downstream 673544 11079088 ~ 11132273 (-)
G72847 NA non-coding downstream 767672 11037508 ~ 11038145 (-)
G73030 NA non-coding upstream 290796 12125536 ~ 12126823 (-)
G73098 NA non-coding upstream 359833 12194573 ~ 12196578 (-)
G73119 LOC108428815,LOC108428741 non-coding upstream 668123 12502863 ~ 12539230 (-)
G73125 NA non-coding upstream 675301 12510041 ~ 12510921 (-)
G73159 fanci,LOC107670230 non-coding upstream 738571 12573311 ~ 12574584 (-)
LOC111193052 NA other downstream 260571 11520887 ~ 11545246 (-)
LOC111193093 NA other downstream 579863 11224779 ~ 11225954 (-)
LOC103046452 rassf7 other downstream 1643333 10101773 ~ 10162484 (-)
LOC103037069 LOC103037069,LOC108442462,LOC101069290,LOC107675263,LOC107562830,LOC107707530,LOC107085412,LOC101171241,LOC103151621 other downstream 1751783 10051952 ~ 10054034 (-)
LOC103042271 LOC108442478,LOC108275244 other downstream 1902924 9856399 ~ 9902893 (-)
LOC111193053 tnni2a.2,LOC108428758,LOC108275295,LOC103035007,LOC107549280,LOC107595232 other upstream 213886 12048626 ~ 12051489 (-)
fbxo31 fbxo31,LOC107675295,LOC107751272,LOC107742043,LOC107662464 other upstream 713950 12548690 ~ 12564978 (-)
G73172 NA other upstream 776094 12610834 ~ 12621356 (-)
LOC103025073 dynlrb2,LOC103025073,LOC106573385 other upstream 2707456 14542196 ~ 14545536 (-)
hbp1 hbp1,LOC107732286,LOC107701066 other upstream 2874318 14709058 ~ 14797283 (-)

Expression


Co-expression Network