CI01000058_00482663_00504956 (RPF1, SPATA1)


Basic Information

Item Value
gene id CI01000058_00482663_00504956
gene name RPF1, SPATA1
gene type misc
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000058
NCBI id null
chromosome length 5213219
location 481748 ~ 505206 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000058_00482663_00504956.mRNA
AAATACTTTGAAGCAACATATTTATTAATATAACATATTATATTAAATTATATTATATTATATTATATTATATTATATTATATTTATTATTATATTATATTATTCGTATTTTGAACAATTATGACTATCCGCTAGAAGACGCTAAACACAACACCAACTCACGTGGCAGAAAGAACTTCCAGTTGAACCGGAAGTAGAGTTTCTCACACACGTGAAGACAAGTCTATGGTGAAGACAGAAGCAACAGAAAATGGATTCTACCGAGTTAACAACTTCAGAAAGTGTTTCTAAGAAAAAGGGGAAAACGAAAAAACCGAAACGAAAGGCGAAACCTGACGAAGCTCCAGTGGAGAAGATGGATCCGGAGAAGGGTGAAGTAACAGACGAGAAACCAGTGTCAGAAGCGTGTTTTCCTCCAACATTCAGCATGTCCGAGATCAAAAACAAGCAGCGCAGACATGCGATGTTCCTTAAACTTAAGGAGCAGAAAAGAAAGCAAAAGTTGGAACTGAAAAAGAAAAGAAAAAAGGAGAGAAAAGCTCTTGGTGATAAGGCCCCACCTAAAGAAGTTCCCAAGACAATAGAAAACCAGAGAATATACGACGAAACTACAGTCAACCCAGAGGATGAGGAGGTGGCTTTTGATGAAGGAACCGATGAGTTCGCCGCTTACTTCAATCGGCTGACAAACCCCAAAGTTCTCATCACCACTTCAGACAGGCCCAGAGGAAGGACAGTGAGGTTTTGTGATCAGCTGGCAACTGTAATCCCACATGCACATGTCTACTACAGAAGAGGTCTGGCGTTGAAGAGAGTCATCCCACAGTGTATATCTAGAGGTTTCACTTATCTGATGGTGATCAATGAGGACAGAAAGAGAAGAGGTAAGGACCCAACAGAACACGTCCCAGAAGTCATCCTCAACAACTTCACTACTAGACTCGGTCACTCCATCGGCCGGCTGTTTGCTGCTCTATTTCCTCATGATCCACAGTTTGTGGGCCGTCAGGTTGCCACATTTCACAATCAGAGAGACTTCATCTTTTTCAGGTTTCACAGGTACATCTTCAAGAATGAAAAGAAAGTGGGCATACAGGAAATAGGACCTCGCTTCACTCTTAAACTTCGCTCCTTACAGAAAGGAACCTTTGACTCAAAGTTTGGGGAATATGAATGGGTTCACAAATTTGATCGGAGGTTGAATAAAGTTTCAGCTGAAGCTATGGACACTTTCATCTCAGCTGGATTCATCAGAGTGGATTCAGATGTGAGTCTGTCTGATCTCAGATCTGATCTTGGATCCTTTCTTGGGCTGGACAGGATCACAGAGAGATATGTTTTTTTAAAATGCGTTGGCAGAAGTTTGGCACTGGTTAAATTCAGACAAGAGGGAGAACTGACAGTAAAATCATTCACTCCACCATTTGCTCCTTTTCCTGAGCTCTACGTTTTACCCGTGGTAGAGAATGACAGTGGCCTTTGCTCCAGCTCTCTGACCCCTGATACTTTATTAAGCAACACTGACCATCACAGTCACGATTTGCCAAGACCATCATGTGCACCTGGAAAGATAAAAGAGCCTATTAAATTCCCCTCAATCAATAAAGGGCCTCAGCAATCTGTCCTAATGCAGGATTCAGAGGAGAACAAGAGTGATGCAGAATTCACTGACACTCCTCATCTAACATACAGTTCACGAGATCAGATGGAACCTGTAAACAAACAGCCCGGTTATTCATTTATGTTCAATGTAGACAGACATCTTACTAAACAGGGTGGCTTTTTTCAAATAGAAATGGATACAACTGCAAAAAAGGAACATTGTTTTAAAAGAAACAACAGAAACTCTGGAGCTCCAGAGGCATTTGGGGATTCCCAAGGACTGGCAAGGAAATTCAATAGTTCTCTGACACTGAAATCAAGTGAAGAAAAAACAGATGATATGGTTCTTATGAGTAGACCAACCTCTCCACTCCCAGCAGAGAGCAGTTCTCCTCTGTCTGTCTATTCCCTGGAAATTTATACACAACAAACTACCACTAGCAATGAGCTGATAAAGGAACTCAAGCTACTCAAAGAGCAAAGGAAGGAGCTTGAACAAACAAGGCAAGAGCTTTTGAAAAAGGGTAGAGAACTTTTAGCTCTTAACAGACATCGCAGGAACCAAGCACGCAACAGGTGGAAGAGGCAATATTTTGACACTAAGAAGGCAACAACACTTCTGGAGGACGCACTTAAGAGTGTACAACTGGAACTACAAACCTTCTACAGTAAAATGCTACAACAACTCCAAGCCAGAGATGGTGCAAAACGACGAATGCAAGCAAGGAAACAATCAAGCACAAAGTTGAAGAATGAGTTGATAATCCAGATTATGATGGAGAGCAGTGAAATTGATAATCTGTGGAAAAATGTGGATGATGCTAAAATGAAACTGGCTACAGAGATCAAGTTGAGAAAGCAAGCTGCCACAGAACTACGATCCCTGAGAGCAGAACTGATGCAAAAGAGAGCTCAGTTTTAAGGAAACACAGAATACACATCTATGTGCTTAGATTTCTTAGAATTTAAATTTCTTTGTGGACAAAAGTTGTGATTCAGCTTTCACTGAAAATAATGAAATTATGTATAAAAGACTTTTTACATTTACACAAAGCACAAAAGATAGTATTTAAGAGATTTGACAGATATTGTTTTGCAATTTGAGTAATGTGTAAATCTGCTTCCTGGATTTAGTCTGGCTGTTTAAAAATGAAGTATGTAGTATCTGCAGCACCATTAACATCACCAAATGTACAAAAATAATTAGTTTCCCGAACACTTCCTCTCTCCTCCAGTGATCGGCTAAAGAGATGGTTGAGCTCAGGATGTACAGCAATGGTTTGAAAGCATCACAGTGTTTACACATTTTGGGGAAACCAACCTATGAATGTCTGACTTATAATTGATTGCAGACATTAAGATGGGTTACGACATCCAAAAAAAATGACACTCTTCATCTTTAACATATTAACTACAAAATTCCGATTTAGAATCATGATACGCAGTACTGAATTAGGGAAATTATGTTCATGCAAATGATTACATGTAATAAA
>TU280884
CAAAGTTGAAGAATGAGTTGATAATCCAGATTATGATGGAGAGCAGTGAAATTGATAATCTGTGGAAAAATGTGGATGATGCTAAAATGAAACTGGCTACAGAGATCAAGTTGAGAAAGCAAGCTGCCACAGAACTACGATCCCTGAGAGCAGAACTGATGCAAAAGAGAGCTCAGTTTTAAGGAAACACAGAATACACATCTATGTGCTTAGATTTCTTAGAATTTAAATTTCTTTGTGGACAAAAGTTGTGATTCAGCTTTCACTGAAAATAATGAAATTATGTATAAAAGACTTTTTACATTTACACAAAGCACAAAAGATAGTATTTAAGAGATTTGACAGATATTGTTTTGCAATTTGAGTAATGTGTAAATCTGCTTCCTGGATTTAGTCTGGCTGTTTAAAAATGAAGTATGTAGTATCTGCAGCACCATTAACATCACCAAATGTACAAAAATAATTAGTTTCCCGAACACTTCCTCTCTCCTCCAGTGATCGGCTAAAGAGATGGTTGAGCTCAGGATGTACAGCAATGGTTTGAAAGCATCACAGTGTTTACACATTTTGGGGAAACCAACCTATGAATGTCTGACTTATAATTGATTGCAGACATTAAGATGGGTTACGACATCCAAAAAAAATGACACTCTTCATCTTTAACATATTAACTACAAAATTCCGATTTAGAATCATGATACGCAGTACTGAATTAGGGAAATTATGTTCATGCAAATGATTACATGTAATAAATGTGCCAATGTCAATTAAAGTTCAATTAAATCTAAGCTTTTAGTAGGGTTGCTGACAAGTAATGTGCCATTTATTCGGTTTATAATAAAACAATAAAATTTTTTATGCAAATATTGACAAAAAGAAACAGAGAATCCTATGAGACAGCAGCAGACTCCCTGTGTTCATTTGGGTATAAGGGCGTTCCACATGTCCATAGTCTGTTGCTGGGCGATTGGATCACTGCTGTAGTCCAGGAGGTTTCCATTCCACATTCCGATTCCTTTCAGACCATGTTGTGCCACATAGACAGCTTTCAGAGCAATGCTTTCTGGGTCATCATACCACACCTGATGGACCCTGCC

Function

symbol description
rpf1 Predicted to enable RNA binding activity. Predicted to be involved in maturation of 5.8S rRNA and maturation of LSU-rRNA. Predicted to act upstream of or within ribosome biogenesis. Predicted to be located in nucleus. Predicted to be part of preribosome, large subunit precursor. Predicted to be active in nucleolus. Orthologous to human RPF1 (ribosome production factor 1 homolog).
spata1 Orthologous to human SPATA1 (spermatogenesis associated 1).

GO:

id name namespace
GO:0042134 rRNA primary transcript binding molecular_function

KEGG:

id description
K14846 RPF1; ribosome production factor 1

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000058_00482663_00504956.mRNA False 3095 mRNA 0.40 18 482092 505206
TU280884 True 1097 lncRNA 0.36 3 481748 483090

Neighbor

gene id symbol gene type direction distance location
CI01000058_00441219_00462553 NA coding downstream 19373 441211 ~ 462719 (-)
CI01000058_00424190_00424456 NA coding downstream 57129 424142 ~ 424963 (-)
CI01000058_00282795_00302233 RAP1B, RAP1A coding downstream 179859 281394 ~ 302233 (-)
CI01000058_00252333_00267027 RPN2 coding downstream 215065 252283 ~ 267027 (-)
CI01000058_00155300_00224503 CDK5RAP1 coding downstream 257589 155300 ~ 224503 (-)
CI01000058_00570327_00573074 NA coding upstream 65067 570273 ~ 573074 (-)
CI01000058_00599524_00634109 APC2 coding upstream 93973 599179 ~ 634109 (-)
CI01000058_00665144_00668842 NA coding upstream 159830 665036 ~ 668842 (-)
CI01000058_00673067_00690079 NA coding upstream 167012 672218 ~ 690095 (-)
CI01000058_00694430_00713270 ADGRL4 coding upstream 189133 694339 ~ 713270 (-)
G247474 NA non-coding downstream 47969 433915 ~ 434123 (-)
G247472 NA non-coding downstream 55322 426502 ~ 426770 (-)
G247438 NA non-coding downstream 70402 383731 ~ 411690 (-)
G247437 NA non-coding downstream 121733 360119 ~ 360359 (-)
G247428 NA non-coding downstream 150493 331303 ~ 331599 (-)
G247487 NA non-coding upstream 3448 508654 ~ 509085 (-)
G247492 NA non-coding upstream 7598 512804 ~ 513019 (-)
G247499 NA non-coding upstream 38684 543890 ~ 547221 (-)
G247506 NA non-coding upstream 42530 547736 ~ 547939 (-)
G247507 NA non-coding upstream 42795 548001 ~ 548208 (-)
G247592 NA other upstream 141237 646443 ~ 654949 (-)
CI01000058_02859435_02860658 FAM72A other upstream 2353277 2858483 ~ 2861491 (-)
G250230 NA other upstream 3183437 3688643 ~ 3696711 (-)

Expression


Co-expression Network