AMCG00018844 (smarcb1,LOC107661349)


Basic Information

Item Value
gene id AMCG00018844
gene name smarcb1,LOC107661349
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030135.1
NCBI id CM030135.1
chromosome length 28454832
location 22637693 ~ 22645367 (-)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00018844
ATGcgtgtcgtttttttttttgtttttactgtacaAGCCGCATGCGCAGTGTGGGGCTTTGTTACAGCCAAGATGGCGTTAAGTAAAACCTTCGGACAGAAGCCGGTGAAATTTCAGCTCGAAGAGGATGGAGAGTTTTTTATGATTGGTTCGGAGGTGGGAAACTACCTGCGGATGTTCAGAGGCTCATTGTACAAGAGGTACCCGTCACTGTGGCGAAGACTAGCGTCTGTTGAAGAGAGGAAGAAGATAGTTGCATCATCACACGATCACGGTTACACAACTTTAGCCACCAGTGTGACTCTGCTGAAAGCATCTGAAGTCGAAGAGATCTTGGAAGGGAACGATGAGAAGTACAAAGCAGTTTCCATCAGCACTGAGCCACCAGCCTACCTCAGGGAGCAGAAGGCAAAGCGCAACAGTCAGTGGGTGCCCACCCTGCCCAACAGCTCCCACCACCTGGATGCCGTGCCCTGCTCCACCACCATCAACCGCAACCGCATGGGCCGAGACAAGAAGAGGACCTTCCCTCTGTGGTTTGTGCATAGCGACTCGGTCTTTCAGTCACTTTTTGATGACCACGACCCAGCGGTGATCCACGAGAACGCTTCCCAGTCTGAAGTTCTGGTTCCAATCCGACTTGACATGGAGATAGACGGACAAAAGCTCAGGGACGCCTTCACATGGAACATGAATGAAAAGCTCATGACTCCCGAGATGTTTGCCGAGATCCTGTGCGATGACCTGGATTTGAATCCCCTGACCTTCGTCCCTGCCATCGCGTCGGCAATCAGGCAGCAGATTGAGTCCTACCCCACAGACAGCATCCTAGATGAGCAGACGGACCAGAGAGTCATTATTAAGCTGAATATCCACGTCGGCAACATTTCGCTGGTGGACCAGTTCGAGTGGGACATGTCCGAAAAGGAGAACTCCCCAGAGAAGTTTGCCCTGAAGCTGTGCTCCGAGCTGGGGCTGGGAGGGGAGTTTGTCACCACCATCGCCTACAGTATCCGAGGGCAGCTCAGCTGGCATCAGAGAACATACGCCTTCAGtgagAACCCGTTGCCCACAGTGGAGATTGCCATTCGCAACACAGGTGATGCCGACCAGTGGTGCCCTCTACTGGAGACCCTGACAGATGCCGAGATGGAGAAGAAGATCAGAGACCAGGACAGAAACACAAGGCGTATGAGACGTCTCGCCAACACAGCACCGGCCTGGTAAAACCTTGTCAGTCCTCAGACGTCTGGGATTCGCAGCTCAAAAGGAACAGAGACTATTGGAAACGACGCCAGCCGATTTGCCCTGAGATACAAAGACATTCCACTATCAAGGCGATCGGAGCCTGTCTTCTTCCAgaacccccacccaccccctcgCTGTATGTGTAAAGACTGATGTCCCTGTTTAATGTCATCCTTGGAACTGATCCACAAAATGCCTGTGTGGAACATGTACTGGTATTGTGctgttaatgtttttgtataGGTGCCCAGAGCACTTTTAGTAAActtgattattttgttctttttttaaataaaattcacGCTTAATATT

Function

symbol description
smarcb1 Enables several functions, including Tat protein binding activity; p53 binding activity; and transcription coactivator activity. Contributes to RNA polymerase I core promoter sequence-specific DNA binding activity. Involved in several processes, including chromatin organization; regulation of histone modification; and regulation of transcription, DNA-templated. Acts upstream of or within single stranded viral RNA replication via double stranded DNA intermediate. Located in fibrillar center and nucleoplasm. Part of SWI/SNF complex. Implicated in Coffin-Siris syndrome 3; atypical teratoid rhabdoid tumor; neurilemmomatosis; and rhabdoid cancer. Biomarker of colorectal adenocarcinoma; hepatocellular carcinoma; sinonasal undifferentiated carcinoma; and synovial sarcoma.

NR:

description
PREDICTED: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1 isoform X2

GO:

id name namespace
GO:0006337 nucleosome disassembly biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0030154 cell differentiation biological_process
GO:0043044 ATP-dependent chromatin remodeling biological_process
GO:0044772 mitotic cell cycle phase transition biological_process
GO:0008285 negative regulation of cell population proliferation biological_process
GO:0006281 DNA repair biological_process
GO:0000228 nuclear chromosome cellular_component

KEGG:

id description
K11648 SMARCB1, SNF5, INI1; SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily B member 1

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00018844 True 1560 mRNA 0.51 9 22637693 22645367

Neighbor

gene id symbol gene type direction distance location
AMCG00018843 NA coding downstream 47369 22588552 ~ 22590324 (-)
AMCG00018842 NA coding downstream 51657 22584167 ~ 22586036 (-)
AMCG00018841 NA coding downstream 54854 22561021 ~ 22582839 (-)
AMCG00018839 NA coding downstream 100374 22498019 ~ 22537319 (-)
AMCG00018840 NA coding downstream 149981 22481139 ~ 22487712 (-)
AMCG00018856 NA coding upstream 108600 22753967 ~ 22760428 (-)
AMCG00018861 NA coding upstream 122094 22767461 ~ 22768061 (-)
AMCG00018859 NA coding upstream 126069 22771436 ~ 22790973 (-)
AMCG00018860 NA coding upstream 164118 22809485 ~ 22821646 (-)
AMCG00018857 NA coding upstream 194165 22839532 ~ 22850722 (-)
G119048 NA non-coding downstream 7568 22627545 ~ 22630125 (-)
G118947 NA non-coding downstream 483979 22151354 ~ 22153714 (-)
G118892 NA non-coding downstream 918890 21703302 ~ 21718803 (-)
G118889 NA non-coding downstream 935645 21694983 ~ 21702048 (-)
G118886 NA non-coding downstream 956136 21681333 ~ 21681557 (-)
G119070 NA non-coding upstream 18466 22663833 ~ 22664099 (-)
G119072 NA non-coding upstream 21562 22666929 ~ 22667210 (-)
G119128 NA non-coding upstream 116993 22762360 ~ 22766026 (-)
G119129 NA non-coding upstream 189392 22834759 ~ 22857679 (-)
G119180 NA non-coding upstream 337499 22982866 ~ 22983566 (-)
G118936 NA other downstream 523998 22080464 ~ 22113695 (-)
G118727 NA other downstream 1939866 20696834 ~ 20697827 (-)
AMCG00018805 eif2b1,LOC106580370,LOC106585290 other downstream 1947771 20683666 ~ 20689922 (-)
AMCG00018797 NA other downstream 1959256 20644885 ~ 20678437 (-)
AMCG00018794 cdk2ap1,LOC105905088,LOC105026112,LOC108438487 other downstream 2030950 20603495 ~ 20606743 (-)
G119144 NA other upstream 158978 22804345 ~ 22806338 (-)
AMCG00018898 NA other upstream 2430031 25075398 ~ 25084586 (-)
G119538 LOC108444117,LOC105014832,LOC106563153 other upstream 2489404 25134771 ~ 25171644 (-)
G119545 NA other upstream 2540840 25186207 ~ 25187408 (-)
AMCG00018929 NA other upstream 3806357 26451724 ~ 26485315 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000006_10211545_10223229 SMARCB1A, SMARCB1B, SMARCB1, SMARCB1.S coding CI01000006 null 10211431 ~ 10223836 (-)