AMCG00000167 (rtf1,LOC102785722)


Basic Information

Item Value
gene id AMCG00000167
gene name rtf1,LOC102785722
gene type coding
species bowfin (Amia calva)
category of species ecological fish

Chromosome Information

Item Value
chromosome id CM030141.1
NCBI id CM030141.1
chromosome length 22147039
location 5971780 ~ 5984573 (-)
genome version AmiCal1_2021_bowfin_Genome

Sequence

>AMCG00000167
GGTCGAACGTAGCCCAGGCGCCTGCGCAGTGGAGCTCTAGCGCCTTTGTGTGGAGGACTGCGGGGCAGCCGCTGTTTGTCGGCTCGTCTTTATCCGAGCGCACAGCCAGGCAACCCCGTACACAGATAATCATGGTGAACGTGAAGAAGCGGAAAGGACGGGTCGTTATTGACTCTGACTCCGAGGACAGTGCGAGCGACGACAACTTGGATCAGGAGCTGCTCTCTCTCGCAAAGAGGAAGCGGGTGGACTCTGGTGAGCAGGAGGAGCCAGGCAGCAAGCCGACTGCATCCACAGACTCGGAGACGTCGGACAGTGATGATGAGTGGACTGTAGGTGGCACGAAGACCAAGAAGAAAGTGAAACCGGGGAAGGGGAGTGAGAAAAAGGGAGCAACCAAGAAACGCAAGAACAAAGCCGCATCATCGGGCAGCTCTGATGGAGATAGCTCTGCAGAGAGTTCTGCCCCAGAAGAAGGCGAGGTGTCGGACTCTGAGAGCAACAGCTCGTCCTCCAGCTCAGACTCGGACTCTTCCTCGGAGGATGACGTCTTCCGTGATGGCTATGGGGACGACCTGATGGGAGACGAGGAGGACAGGGCGCGACTGGAGAAGATgactgagaaagagagggagcaggagcTCTTCAACCGAATTGAGAAGAGAGAGGTGCTCAAGAGGAGGTTTGAAATCAAAAAGAAGCTGAAAACTGccaaaaagaaggaaaaagaggaaaagaaaaagaagcaggAAGAGGAGCAGGAGAAGAGAAAGCAGTCTCAGATTCAGGACACGCAAGTGGTCATGTCTCACAACAAAGAGCGAAGGTCCAAGCGTGATGAGAAACTGGATAAGAAATCTCAAGCCATGGAGGAACTCAAagctgaaagagagaaaaagaaaaacagaacagCTGAGCTCCTGTCTAAAAAGCAGCCGCTGAAGACCAGCGAGGTTTACTCCGAcgatgaggaggaagaggaggaggatgacaAATCTTCGGTGAAGAGTGACCGGTCCTCCCGCTCATCCTCCTTTGATGAGGAAGAAGAGAAAGAAGAGACCCCTCCAAAGTCACAACCAGTCTCCCTGCCCGACGAACTCAACCGGATCCGATTATCACGGCATAAGCTGGAGCGCTGGTGCCACATGCCCTTCTTCGCCAAGACTGTGACAGGCTGCTTCGTACGCATCGGCATTGGAAACAGCAGCAGTAAGCCGGTGTACAGGGTTGCAGAAATCGTTGATGTTGTGGAAACGGCAAAGGTGTACCAGTTAGGATCCACAAGGACAAACAAAGGTTTACAGTTACGGCACGGCAACGACACACGTGTGTTCCGGCTGGAGTTCGTCTCCAACCAGGAGTTCACCGAGAACGAGTTCATGAAGTGGAAAGAGGCGATGATCATTGCAGCGATGCAGGTCCCCACGTTGGATGAGATCACCAAAAAGGAGCAAGCCATTAAGGAAGCACTGAACTACAAATTCAATGACAAGGACATCGAGGACattgtaaaagaaaaagaccGGTTTCGCAAGGCACCTCCTAATTATGCTATGAAGAAAACACAGCTCTTGAAAGAGAAGgcCATGGCAGAGGAAGTTGCAGATGGAGAAAAAGCCAAGCAGATCCAGGACCAGCTGAATGAGCTGGAAGAGAGAGCCGAGGCTCTGGACAGGCAGAGAACCAAGAACATCTCTGCTATCAGTTATATTAACCAGAGGAACCGCAGCTGGAACATTGTGGAGTCTGAAAAAGCCCTTGTGGCCGAGGGACAGAACGCAAAGAACCAACAAATGGATCCCTTCACAAGACGACAGTGCAAGCCCACCATGGTGTCCAATGCCCGAGACCCTTCTGTTCATGCTGCTATCCTcgctcacctgaaccagaaataTGGCTCGGGGTCGGCGCCAGACAACGTTCTGGAAAAGAATAAACAGGGACAGGGTGGTAAGGATAAAGACCTCGCCAAAACCACCAGCGATCTTTCTGAGGATCTTTTTAAAGTGCATGACTTTGACGTCAAGATTGACTTGCAGGTTCCAAATGCAGAAGCTAAGTCTTTATCGGTGAGCTCTAATGCCCTTCCAGTGAAGGATGGCGCCCCCCGGAGGTCACTCAACCTGGAGGACTACAAGAAGAGGAGGGGACTAATCTGAGTGTGTTGGCCCATTCCAGCTCTCCTTGCATGTGTCCGTTTTTACTGGTGGGACTGCAGGCACTCATCATGGGCTCTaccacgtgtgtgtgtgtatgtatgtgtgtgtgtgtgtgcgactgagtgaatgagtgtatgtgtgtttgtgtccatcTGGAATAAACCAGACTTCACCTCTTGCTGTAAAGGATTCActtgttattgattttttttctccccttttctTGTAAGGTTGTCTATTCTTTATTGAATATTAAGTGCTGAATTGTACttcggattttttttttttttgtactccccctccttccttccttccttcctccctccTTCACACATCATGACCTGCTTTTTGTGATTTGAAGGAGACATCACACTGGAGGACAATAGGgtatattttacattgcttCTGGATTCAACTAATAGACAATGATCTGAATGGACCtgcttcatttgaaaaacaaagatgGACAGTGAAAGGCAATGGAACAATAAGCATTTTTCTTGttggtttgttggtttttcttCACTCTGGATTTATAACTTCAGCAGCATCGCAGAATGTCAAGAGTGAGAAACTGCAAGCCCTGCCTCTTTACTGGGATCTACCTGTGGTGCCCAGACAGGCAGCTCTGGAATATCTGTCCCTTCTGGATCAATGAGGGATATACAAACTCCAACCCCCttcccttttttatatatatacaagaggAAAAcgaaatgaaacaaaacctgTTTCCATTGGAAAACGtagacatatatatttttttctctcccccccatataattttttttaacttggcGTTCAAATGTCTTGTACGTTTACCAGAGAACAGATATAAGTGTTGAAAAATGTGTCCTTGGTAAATCCTGTATTGATGTGGCATGCCATGTAAATATGCGATTCTAATGGGTGCTGCTCAATAAAGAGGGACTGTTTCATAA

Function

symbol description
rtf1 Predicted to enable RNA polymerase II C-terminal domain phosphoserine binding activity. Acts upstream of or within several processes, including neural crest cell development; post-anal tail morphogenesis; and somitogenesis. Located in nucleus. Orthologous to human RTF1 (RTF1 homolog, Paf1/RNA polymerase II complex component).

NR:

description
PREDICTED: RNA polymerase-associated protein RTF1 homolog

GO:

id name namespace
GO:0006352 DNA-templated transcription, initiation biological_process
GO:0007507 heart development biological_process
GO:0001756 somitogenesis biological_process
GO:0036342 post-anal tail morphogenesis biological_process
GO:0016570 histone modification biological_process
GO:0014032 neural crest cell development biological_process
GO:0043473 pigmentation biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function

KEGG:

id description
K15178 RTF1; RNA polymerase-associated protein RTF1

RNA

RNA id representative length rna type GC content exon number start site end site
AMCG00000167 True 3103 mRNA 0.48 18 5971780 5984573

Neighbor

gene id symbol gene type direction distance location
AMCG00000172 NA coding downstream 149654 5791583 ~ 5822126 (-)
AMCG00000171 dcaf5,LOC102780996 coding downstream 180342 5767538 ~ 5791438 (-)
AMCG00000163 actn1,LOC107705429,LOC107602958,LOC107739883 coding downstream 229742 5714870 ~ 5742038 (-)
AMCG00000162 NA coding downstream 262177 5695755 ~ 5709603 (-)
AMCG00000153 slc8a3,LOC106953081,LOC107091425 coding downstream 311825 5658183 ~ 5659955 (-)
AMCG00000178 NA coding upstream 7900 5992473 ~ 6000662 (-)
AMCG00000176 chp1 coding upstream 32973 6017546 ~ 6029796 (-)
AMCG00000179 inf2 coding upstream 83082 6067655 ~ 6069832 (-)
AMCG00000169 NA coding upstream 141221 6125794 ~ 6126360 (-)
AMCG00000188 rad51 coding upstream 260146 6244719 ~ 6258200 (-)
G148486 NA non-coding downstream 259904 5711019 ~ 5711876 (-)
G148417 NA non-coding downstream 516291 5455246 ~ 5455489 (-)
G148416 NA non-coding downstream 517532 5451000 ~ 5454248 (-)
G148400 cdca4 non-coding downstream 591652 5377749 ~ 5380128 (-)
G148364 NA non-coding downstream 731097 5236868 ~ 5240683 (-)
G148610 NA non-coding upstream 163356 6147929 ~ 6148286 (-)
G148801 NA non-coding upstream 1155789 7140362 ~ 7140968 (-)
G148962 NA non-coding upstream 1774109 7758682 ~ 7758963 (-)
G149002 NA non-coding upstream 1971399 7955972 ~ 7956264 (-)
G149030 NA non-coding upstream 2319246 8303819 ~ 8304215 (-)
G148395 NA other downstream 629289 5338809 ~ 5342491 (-)
AMCG00000161 NA other downstream 894534 5071467 ~ 5077246 (-)
AMCG00000084 zbtb42,LOC106582697,LOC106610857,LOC103136097,LOC102793331 other downstream 2412879 3552159 ~ 3558901 (-)
AMCG00000050 NA other downstream 5030945 890112 ~ 940835 (-)
G147324 NA other downstream 5486197 484720 ~ 485583 (-)
AMCG00000180 NA other upstream 19613 6004186 ~ 6012637 (-)
AMCG00000177 NA other upstream 61092 6045665 ~ 6067184 (-)
AMCG00000168 gchfr,LOC106583112 other upstream 166147 6150720 ~ 6154301 (-)
AMCG00000189 NA other upstream 222941 6207514 ~ 6209957 (-)
AMCG00000190 cyp1c1,cyp1c3,cyp1c2,LOC107745367,LOC106610849 other upstream 229432 6214005 ~ 6216441 (-)

Expression


Co-expression Network