RNA id: XM_026929877.2


Basic Information

Item Value
RNA id XM_026929877.2
length 5236
RNA type mRNA
GC content 0.44
exon number 5
gene id sdc3
representative True

Chromosome Information

Item Value
chromosome id NC_047617.1
NCBI id CM018563.1
chromosome length 20335669
location 12751529 ~ 12784427 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

TCTTTTCCTCATTAGGAGAACCCACCGGGCCCGGCACACAtcctcctgagagagagagagagagagagagagagactggtggcTGGATCTTGCTAATTGTGAGTCCAACAGGACCCGAGCACCAAAAGTCAGTAAAAGACTGATAGGCCGTGCGCCACTGCTCCTCGTCTGCTCTTCGTGTGCTTTAGCGGGGATTAGATTCAGCCAGATCCCGGGCAGGACGGATGTCCCGACGACCGCCTGCACTGAACTCGGATCCTGACAACTGAGGAGaagattttagtgttttccccgGTTTTTTTTTGGAGACGACGCGGGGGCGAGCGGGCGATCCGGTGATccgtgttgctgctgctgctgctgctgccgctgCTGCCATGAAGCTACCGGGCTGGATGGCTGTGGCGCTGCTGCTCGCGCACTCTGTGTCGaCACAGCGTCGCTCATCACAGCCAGTGGATCAGGAAAGCTCTGGAGATGACCTCTATGATGATGAGGACTATTTCTCTGGTTCAGGCTCGGGCTACCCAGTGATGGAGGTAGACGCCACTGAACTGGGTACGTCTTTCACCACAAAAGAGCCCCTCCCACTTTCAACCACACAGGCCACTGGACCCGCCCCCTCGGCCCCACCCGCTGCAGAGCCCAGCAGCCCCCCGGTGCCAGAAATAGAGAGGGAGAGTGGTATGGATAGTGAGAGGGAACTGGAGCtggagatggagaaaaagagagagcagcagATTGAGCACGAACAGGAAATGGAGAGAGTgcgggaaagagagagagagcgagagagggaaagagagagagagagggaaagagagcgagagagggagagagagcgtgagagggagagagaaagggaaagagaaagggagagagaaagagagagggagagagaccgTGAACGTGAAAGAGAAcgtgaaaaagagagacagaaggcaAGAAGTACAATTGCACCCAGAGTCCCCTTTGTTCCAATAATGACTACGGACTCTCTTATGATTGTGGATGAGACCCCCATTCCAACTGAAGATATGGAGGACCTTGGCACCACAGAAGAAGAGGATGGTATGTTCATTCCCACGGAAACCTACCCCTTCGAATCACTCAGCACAGAGGACCCCATCACAGATGACATCACAACCACTGAAGCAGCTCCCACCACTATTGCTTCCACTACAGCAATCCCAATCACAACTCCCGCCACACCCGGCACTCCCCCTCCGCGATCACGAAAACCTCAACCGATGCCCAGTATCACTCCTCCACGACCACGGAAACCCCAAGCCACGCCCAGCCCAGCCACGCCCACTGAAAGTACACGCCCAATGCCAGCCTCTACAGtgcagGTAAAAACTCCAAGCGCAGACATAAATAATGAAGTTGCAGTTGCTGGTCCCAGTGGGGACTCTGAGATCCGAGAGGACGAAGGGCGACGAGGAAATGAAGTGGGGCATGGCAAAGGTGCATCGGATGTGGGGGCGGAGCCGGATTTGACTGGCAACACAATAGATACAGGAAGTTCAGCTGCTCAGCTTCCTCAGAAAAACATCTTGGAAAGAAAAGAAGTTTTGATAGCGGTGATTGTTGGAGGTGTAGTTGGTGCACTCTTCGCTGCATTCCTGGTCATGTTACTTGTATATCGGATGAAAAAGAAGGATGAAGGCAGCTACACTCTGGAAGAACCCAAACAAGCCACAGTCACTTATCAGAAACCAGACAAGCAGGAGGAATTCTATGCCTAAAATCCAcacactcttcttttttttgcattcttccATCCTTCTAGCCTCTTCTCCCTCTGACCCTCCTTTCTTCCTGTCATTTCTATCTCTGTTTTTTCCTGAATCCCTCCTTTCTCCATGAGAGTGCCTGCCACTCTGCGGACTTAGGACTTTCTTTTGAATGGGAAAAAAGATCATCAAAAAAGGCTTTGGACAGAATTTTGCAGATCTGCTAGGGAGGGATAGGGACTccatacatacaaaaaaaagaaaaaaaaaacttttttttaagtacacgTTGCTATTGATATGTTTAAGATTGTTGTTCTATAAAATTATGACATAAAACCTTTTGTAAAGACACATGTTCTATAAATGCACAATATTCCTCTTCAGCTGAGCATGGAAGTCAAGAAGCATGACAGAGGGAgtgaggaaggaagaaaggacaGAGAAGGTCAtggtgagacagagagggtCAAGGGAAAGGAATCAAAAAAGATAagacggaaagagagagaggtggaaaaGGAATTTTGAGGCCGTGCTATTCTGAAAAGGTCATGCTTCTGTCACAAGGGTCGCGTTGTGCCTTCCATTCCCCTGGTGCTAGAAGCTGAGCATGACCACAGAatggtgtgcgtgtgtgtgtgtgtgtgtgtgtgtgtgaggctgagGTGACATGAAGTTGCAGCCATCTCTGACCTTAGTAAGCCCAgtcacacagccacacacacacacaaacacacacacacactctaacacatgGTGTAACTCCCTCTGCTGGTGAGAGTGTATGTCAGCAAGGCTGGCCTCAATGACTAGAATTATATCTTTCGAGCAGGGAGGCTGAAAAAACTATGATTAACACAGCACATAAACATTAAGGAAACATTTGCTGTTTGCTGTGATGGTGCGCATGCAAAGAAACAGGATTAGCTATTTCTCTGTTCTGTACAAAGACAATTAGTTATCaatagtaaaaataatcagtaatatATCAGCAGTTCTGAATGGATGGTAAGAGATGATAATATTAGTAGTGAAGGATATCTATTTAGCTGTGCAGTAAAAGTTTTACTGGTGTAAATATCaactcctttttttaatttcagtttatcatgcttttaattatgccttttatgtaataaaatctGCGCACGCACATACACCCTTACATATATATCACTTTGGAAGTATCAGTCCCAATGTTTCAGCAATCTAAATAgggattttatttaacataacaGACCCTCTTGTCCATTACTTcagccgaaaaaaaaaaatcctcattttttcagtattttattgatgttttatCAGGTACAAAGCACAAGCTCACAAGAAtgtgtctcactttctcactgacactcacacaccatcacattcacacacaatacTACACCATTAGATTTCCACTGGTCTTGTCTTCTGAATGATATAAGAGTTAGAAGGCATGGACTGTGTCACTGGGACAGGGGTGTCAGGAAATAAGTATGTGTTTTGGTCACATTTAAAGCCAACATGCAAAAGGATTAATGGTTCTGGAGGAGTACTGCATTAAATACAGAGGAAATTCAGCTGAAGGaattttgttgaaaaaaaaaaatatttgagatTCCAGAGAAGGTCATTTTTGATTATGTTGCAACATTGTGTCAAAGTGCTGTACATCGAGGTCAATAAAACGAAATGGCTGCGCAGTTAGATTTAGGTAAAAGTGCATGATGTAGCAATAATGCAGCTATTAACATCGACACACCCATAATGCTGTCACCCTTCAGTGCTGCTGAGGGAGAATGTACACACGCTCTCGTGCAGATTTCCACTGCCTGGCCTTATTGTAACTTTAACAAACGCTGTAGTCACCTCTATGTGGCGTTACATGTTTGTCACATATCATTCCATGTGTTACAGCGGTGGGTGACATGAGCAAGACCATAGCACAACATTAGAGCACCAAGTGGCGCTTAAAATGTCCCTTACTGCCCACTGTAGCAAATCACTGGTAGGTAAACTAACTAATTCATAACATATCACTATGAGGGGACATGAACGGGACAGGGCTATGACTCTAATAGACTGCACTGAACCACATTACTTAACACAACCTAACCATCTTATTTGTATACCACAGTACTATAGAGCTGTAATACTTCAGATTTCCATCAGTAGAGCACACAAGGACTCAAATCATGGAGTGCTTTTGTGCTTATTTAAAGCAGGGGTGTCAGACACCACAGCAGAGTTCAGCATTATTCCTTACTCAGTACATCATTTAATCACCAATGTCTTCATTAGTTACATTTGGTGTActagaaaagagaaaacacatATATAGGTGTCACCCCCTGGATTAGAGTCTGACCCCCTGATTTAAAGGCTGTGGGAAAAACTCTTGGTTGGTTGGTGTTGTAAGCATGTGAGGTGGATGTACATCTGTCTGAGATTGTAATACCACACCAGTGCACCTGTAgcttgaatatttttaatagtatAATCTAATATGTATGATCATGTcatgcctgtgtgtgcatgtatgtgccCATGCGCTGACTGAAATGTATCTGCCGGATGTTTTTTCCGCTTCCACTTTTCTTCCATTATCATGGGGTTTTTTCATGGAGTAGTATTTATTCAGTTAGCAGAATAATTTAAGCTAGAAGGCAAGACACTCCAATACAAATATTTCTTAGGTTTTATGGGTAAAATGATTGCACTAACTGTGATTTCTCACTTCATAAAATAACCTCCCAGACACCTCCTACTACTGTCATTAGTATAACgaattactgtaacacacacacacacacacaccacaaagtGTGCTTTATAGCTAGGTCCTTGAGAAATTCCTTATGACCACATAGACATCATGCACCTTTTGTGATTTAGTGCACTAACAAAATCGTCACACAGTCTCAGCAATCACTCATAAATAGTAATAAGTTTGCTTTCACAATCAATGTGATTACTAGTTCAATTTATAGAAATGCTCAAGCCAACATTTGATCATACTTCAGGGATCAAGATGATTTGATTGTTCACATTTTTAACATATGGCTTACaaggatacaaaaaaaaaaaaaacatacactcaATTTCACTGAACTATGTATACTGAACATGCCAACACAACACAAATGCACACCCACATGCCTcccaacaccaacacacacctgttcactTGGCAATGTCTGGTGGTCATTGTGTGTTAAACCTGAATGGATTTGTCTCAGTGGAATTTTGTTTGGTTGATTGCTGTTTTCCCTGCCATCTACCTTAACCTGTCACTCTCTACCCATGGCCAAATAAAAGGCAGGccttcctgtgtttgtgtgccaATCACAGGCCAGCATGGATTTGATGTGAAGGttgcccattgtgttttatacgTGCGCATTTTTAAGagcagaggttttttttctcctcatttgGTTTGTGTATATGGGGGCGACATTCTGTCACTAATATGCCACTCTGTTCTAAATAAAAGACCTGACTAGGTA

Function

GO:

id name namespace
GO:0055113 epiboly involved in gastrulation with mouth forming second biological_process
GO:0016021 integral component of membrane cellular_component
GO:0008092 cytoskeletal protein binding molecular_function

KEGG:

id description
K16337 SDC3; syndecan 3

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
XR_004577006.1 lncRNA upstream 64316 12684133 ~ 12687213 (+) True LOC117595825
TU405914 lncRNA upstream 72199 12679115 ~ 12679330 (+) True G342629
TU405913 lncRNA upstream 74332 12676848 ~ 12677197 (+) True G342628
TU405912 lncRNA upstream 76178 12675141 ~ 12675351 (+) True G342627
TU405904 lncRNA upstream 102812 12648495 ~ 12648717 (+) True G342621
TU406059 lncRNA downstream 362618 13147045 ~ 13147846 (+) True G342735
TU406167 lncRNA downstream 517112 13301539 ~ 13301803 (+) True G342836
TU406909 lncRNA downstream 978657 13763084 ~ 13766601 (+) True G343522
TU407024 lncRNA downstream 1184807 13969234 ~ 13994319 (+) True G343620
TU407094 lncRNA downstream 1292030 14076457 ~ 14078541 (+) True G343671
XM_026930137.2 mRNA upstream 7711 12727116 ~ 12743818 (+) True pum1
XM_026930139.2 mRNA upstream 8858 12727116 ~ 12742671 (+) False pum1
XM_026930136.2 mRNA upstream 8858 12727297 ~ 12742671 (+) False pum1
XM_026930140.2 mRNA upstream 8858 12734930 ~ 12742671 (+) False pum1
XM_026930141.2 mRNA upstream 27985 12714707 ~ 12723544 (+) True nkain1
XM_026930068.2 mRNA downstream 1410 12785837 ~ 12792473 (+) False LOC113536228
XM_026930069.2 mRNA downstream 8768 12793195 ~ 12797790 (+) True LOC113536229
XM_026929885.2 mRNA downstream 13985 12798412 ~ 12804158 (+) True matn1
XM_026929886.2 mRNA downstream 21719 12806146 ~ 12815232 (+) True sesn2
XM_026930145.2 mRNA downstream 34677 12819104 ~ 12836295 (+) True yrk
TU405918 other upstream 56017 12692025 ~ 12695512 (+) False fabp3
XR_004577055.1 other upstream 936256 11810109 ~ 11815273 (+) False sostdc1b
TU405031 other upstream 1457173 11292324 ~ 11294356 (+) True smim12
TU405030 other upstream 1457499 11292324 ~ 11294030 (+) False smim12
TU404551 other upstream 2269559 10474483 ~ 10481970 (+) True G341451
XR_003403671.2 other downstream 1410 12785837 ~ 12792473 (+) True LOC113536228
XR_004577016.1 other downstream 120196 12904623 ~ 12951963 (+) False si:ch211-199g17.2
TU406031 other downstream 292743 13077170 ~ 13081229 (+) True G342718
TU407134 other downstream 1421309 14205736 ~ 14219690 (+) False slc30a8
TU407132 other downstream 1449130 14233557 ~ 14249520 (+) False med30

Expression Profile