RNA id: XM_007260216.2


Basic Information

Item Value
RNA id XM_007260216.2
length 4317
RNA type mRNA
GC content 0.51
exon number 3
gene id chsy1
representative True

Chromosome Information

Item Value
chromosome id NC_035901.1
NCBI id CM008304.1
chromosome length 40584741
location 5328228 ~ 5424313 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome
species mexican tetra
(Astyanax mexicanus)

Sequence

agcgGCACTTGGCTGCTGTGCGGGTCGGTGCTCTGATGGTGAAGTGAGCTCGGAGCGCTGGAGGGACGGAGCGCCGCTCTCAGGCCGACACCAGCCACCAACCAGGCACCGTTCAGTCCGAGTTTGTGACTCATTGAGGTGTTGGAGCTTAGCTGGGCATGTGGAGAGCGCTAGCGCCGCGCAGCAACGTCGACAAGTAGCCGGAGCCGGAGCGCCTTACAGCGGCGGCTCCTGCCATGAGAGAGACCGAGTGCGGAGCGCTGGAGCGGGGCAACGACACCCACACACTGtggccgccgctgctgctgctgccgctgctacGGCTTTGAGTTGACCGGCACACGGTTCTTAAAACTCCGGACTCTAGAGACAAAAAGAGGGGGTGGATTAAGCAGAAAAGCTCGGGGGGATGGCCGGGAGAAGCCGCAGAGCCTGGTTCAGCGTTCTCCTGGGGCTGGTGGTCGGCTTCACTCTGGCTTCCAGGCTCATTCTTCCGCGGGCCAACGAGCTAAAGAAAGCGGGACACAAGCGCAAGGCGAGCGGAGTCGGCGGTGGCGGAGTGGCGGGGGGCTGCGGCGGCggtgggggaggaggaggaggcgccGGGCTCAGGAGGGAGCACGGGGGGCTGCTGATGTGGCCACCTCCGCCGCCGGAGCGCGGAGCTCAGCCGACGGATAGATCCGCTCAGAAAGCTGGACATTTCCTCTTCGTCGGCGTTATGACGGCGCAGAAGTATCTGAATAACCGCGCCGTGGCGGCTTATAGGACCTGGGCTCAAACCATTCCAGGCAAAGTGGAGTTCTTCTCCAGCGAAGGCTCCGACACGTCCATTCCTATTCCCATCGTGGCCCTGAAGAACGTGGACGATTCCTACCCTCCTCAGAAGAAGTCCTTCATGATGCTCAAGTACATGCACGATCACTACCTGGACCAGTACGAGTGGTTCATGCGCGCCGACGACGACGTTTACATCAAGAGCGACCGGCTGGAGAGCTTCCTGAGGAGCCTGAACAGCAGCGAGGCCATTTTTCTGGGACAGACGGGGATGGGGGCCCGGGACGAGCTGGGCAAGCTGGCGCTGGAGCCTGGCGAGAACTTCTGCATGGGGGGACCGGGCGTGATCATGAGCCGCGAGGTGCTGCGCAGGGTGGTGCCCCATATCCGCCAGTGCCTGCAGGAGATGTACACCACGCACGAGGATGTGGAGGTGGGCCGCTGTGTGCGGCGGTTCGCGGGGGTCCAGTGCGTCTGGTCTTATGAGatgcaGCAGCTGTTTTACGAGAACTACGAGCCGAACAAGAAGGGCTACATCCGAGACCTTCACAACAGCAAGATCCACCGGGCCATCACACTCCATCCCAACAAGAACCCGCCCTACCAGTACAGACTGCACAGCTACATGCTGAGCCGCAAAATCGCTGAGCTCCGGCACCGCACCATTCAGCTTCACCGGGAGATCGTGCAGATGAGTCGCTACAGCAACACGGAGGTGCACAAAGAGGACTTGCAGCTTGGAATGCCTCCTTCCTTTATGCGGTTCCATCCTCACCAGCGGGAGGAGGTGCTGGAGTGGGAGTTCCTCACGGGGAAGTACATTTTCTCCGCCCTGAACGGGCAGCCTCCGCGCCGTGGCATCGACTCCTCGCAGAAGATGGCGCTGGACGACATCATCATGCAGGTAATGGAGATGATTAACGCCAACGCCAAGACCCGAGGCAGGGTTATTGATTTCAAAGAGATTCAATATGGCTACCGCAGGGTCAACCCTATGTATGGAGCAGAATATGTGCTCgacctgctgctgctttacAAGAAGCACAAAGGGAAGACCATGACTGTACCGGTGAGAAGGCATGCCTACCTTCAACAGACCTTCAGCAAGATCCAGTTCCTGGAGGAAGAAGAAATGGACGCACGGGCGCTGGCAGCTAGGATCAACCAGGACTCGGACTCCCTGTCTTTCCTCTCCAGCTCCCTTAAGATGTTTGTGCCGTTCAAGCTCAGCAGCTCCGGCTCAGAGCAGCACGAACCCAAAGAGAAGAAGATCAACATCCTTGTGCCGTTGGCGGGGCGGTACGAGATCTTCGTGCGCTTCATGGTCAACTTTGAGAAGATCTGCCTTATCCCCAGCCAGAACGTTAAGCTGCTGGTTCTTCTCTTCAGCACGGACAACAACACGGAGCGCGTGAAGCAGATCGAGCTGATGAGGGAGTATCGTTTGAAGTATCCCAAAGCTGACATGGAGATCAAGCCCGTTTCCGGCCCCTTCTCCCGTGCCCTGGCCCTGGAGGTCGGCTCGGCTCACTTCACCAATGATTCCTTACTCTTCTACTGTGACGTGGACCTATTGTTTACAGCTGATTTCCTCAAGCGATGTCGCGGAAACACCATACTGGGGGAACAGACGTACTTCCCAATCATCTTTAGCCAGTACGACCCGAAGGTTGTCTACGCCGGAAAGGTACCGAGCAACAACCACTACGTGTTCACGTCCAAAACGGGCTTGTGGAGACACTACGGCTTCGGCATCGTCTGCGTCTACAAAGGGGACCTGGTCAAAGCTGGCGGCTTTGACGTCTCCATCCAGGGTTGGGGGCTGGAAGACGTGGATCTTTTTAACAAATTTGTCCAGTCAGGGATGGAGCTGTTCAGGAGCACAGACACTGGCATAGTGCACGTTCACCACCCCGTCATATGTGACCCCAACCTAGATCCCAAACAGTACAAGATGTGCCTGGGTTCCAAAGCCTCGTCCCACGGTTCCACGCAGCAGCTCGCCGAGCTGTGGCTGGAGAAATACGACCAGGGCTTTCGGAGGATCTCTAGCTCTAATAACGGATCAATGAGGACAGCATAGGCTCGAGCGTAGAACCTGCGAGCTTGGACCTGCATTGGACCTGTCTTCCTCTTTATGGTGTTTTCAACtacctaatttattttttcatagaAAAGAACTCTGTGGATATATTTTCGAAGAACTCCTTTTATAAAGTATGAGAATAAAAACACCAGAGAACGAACATCTTCAGAACGTTTTTCTACCAATGCTAAGAGAATGGATTAAAAAGGCATCCGAAGTGCTGGAACAccgatttttttcccccctcaaaTCCAGTAATAAAAATTACGATGATGAGTGTTGTGTTTATGGCGCCTCGTGTGAGGACTCTCTAAGTACTTTAAGtaagtacagtatatactgtgtaCCTCAGTGATGTGCACACCAGTCACAGTGTGTTTGTGGAGGAGGAGGGACTTTATACTCTATGAGGGTCAGGTCTCAGATGTGCAAATGTGGTGTTGGTGGGGAAATggttaatgtatttttacttgTGAATGTTTACAGGAAGCCACATGTACAAGCGATACGTCTTTCGACAAACCGAGAAAtcgacaaaccaacaaacctgATTAATTTTGCAGTTTTATGGGCCATAGATCACATCTTCATttctgatttattgatttatttcttttttttttgatctgTTATGACACTGTTgcgttgttgttgttgtttgtttgtttatttgatatattttttattttattttaatttgttgtgttttttttttttcttttaatgatttTGACATGTGAACAGAACTGCTGGATCTTGGTTTTGATCTTTCCAACTCATTCCCACTGTTTAATTTATTGAATGCAGTCTCATATGTACAATATCAGGCTGAGGTTATGTATATTAGAGATTATACAACAATCTCAGTcagagatttcttttttttgttctgttttttgtttttggtttgtttttctctttcgcAAATTAATTTGGTTACCAAAGACTTTTTGCACAGTTGCTGTAggtattgtttgtgtgtgaatgtgtgcgtgcctgtgtgtgcgtgtacgtatgtgtgtgtgtgtgtgtgtgtgtatgcaggcGGTAGAGCTGTCATGAACATGAAATGAACTCTAGGATGGCGGTACTGAGTGTCACGTTTTAGTCAaattttggaaaatgaaacacTTTTTACCTGGACACACGTAGAATGAATCACAGTTATCCCTCTTCTGAAATCTGCACAACATTTATCACTATCCTGATTTGAGTCCTTTGATGTTGTAGAATGAGATGCAGGATCTGGATAGAACAGATCTGGATAGGTCACGGGGTGAATGATGCCCAGCCGCCTTGCCTTTCGGACTTTAGGACCGCTCTCCCACAgtgttatatacacacactcatttctGTCTGGAGCTCTTTTTGTACTTCTGTTATCTGTTAGCTCTTATCCAACCGGGTAAgggttatatatttaattaataaacagaaaaaaaaaaaaaacatta

Function

GO:

id name namespace
GO:0060876 semicircular canal formation biological_process
GO:0050650 chondroitin sulfate proteoglycan biosynthetic process biological_process
GO:0008593 regulation of Notch signaling pathway biological_process
GO:0003007 heart morphogenesis biological_process
GO:0060536 cartilage morphogenesis biological_process
GO:0033339 pectoral fin development biological_process
GO:0060042 retina morphogenesis in camera-type eye biological_process
GO:0032580 Golgi cisterna membrane cellular_component
GO:0016758 transferase activity, transferring hexosyl groups molecular_function

KEGG:

id description
K13499 CHSY; chondroitin sulfate synthase

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU54663 lncRNA upstream 15884 5308546 ~ 5312344 (+) True snrpa1
TU54609 lncRNA upstream 164899 5133530 ~ 5163329 (+) True G40511
TU54674 lncRNA downstream 20880 5445193 ~ 5458624 (+) True G40556
TU54748 lncRNA downstream 324818 5749131 ~ 5749712 (+) True G40617
TU54802 lncRNA downstream 416241 5840554 ~ 5840773 (+) True G40660
TU54837 lncRNA downstream 640085 6064398 ~ 6064642 (+) True G40692
TU54840 lncRNA downstream 667558 6091871 ~ 6092282 (+) True G40695
XM_022669523.1 mRNA upstream 8089 5312640 ~ 5320139 (+) True selenos
XM_022669521.1 mRNA upstream 17306 5305687 ~ 5310922 (+) False snrpa1
XM_007258133.3 mRNA upstream 321643 5001765 ~ 5006585 (+) True mex3b
XM_022669519.1 mRNA upstream 395199 4762193 ~ 4933029 (+) True efl1
XM_022669516.1 mRNA upstream 583676 4535235 ~ 4744552 (+) True LOC103028701
XM_022669526.1 mRNA downstream 285387 5709700 ~ 5717935 (+) True lins1
XM_015602437.2 mRNA downstream 298563 5722876 ~ 5750365 (+) False cers3
XM_022669527.1 mRNA downstream 298563 5722876 ~ 5749918 (+) False cers3
XM_007237231.3 mRNA downstream 298576 5722889 ~ 5750365 (+) False cers3
XM_007237232.3 mRNA downstream 304232 5728545 ~ 5750365 (+) True cers3
TU54660 other upstream 17421 5308546 ~ 5310807 (+) False snrpa1
TU54378 other upstream 1192643 4134510 ~ 4135585 (+) True G40318
TU53987 other upstream 2516732 2689967 ~ 2811496 (+) False LOC103029230
TU53995 other upstream 2590011 2735596 ~ 2738217 (+) False LOC103029230
TU53709 other upstream 3541992 1783424 ~ 1786236 (+) False muc2
TU54910 other downstream 1109052 6533365 ~ 6533674 (+) True G40756
XR_001518717.2 other downstream 2402210 7826523 ~ 7826914 (+) True LOC107197696
TU55733 other downstream 4571440 9995753 ~ 10005398 (+) False LOC103037553
trnar-ucg_1 other downstream 4868024 10292337 ~ 10292409 (+) True trnar-ucg_1
trnam-cau_21 other downstream 5330896 10755209 ~ 10755281 (+) True trnam-cau_21

Expression Profile