RetrogeneDB ID: retro_ggor_2520

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:57806987..57807741(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: IGF2BP3
• Ensembl ID: ENSGGOG00000010286
• Aliases: None
• Description: None

Sequence

>retro_ggor_2520
AGGTGCTTTCAGGAATTGACGCTGTATAATCCAGAATGCACCATTACAGTTAAAGGCAATGTTGAGGCATGTGCCAAAGC
TGAGGAAGAGATCATGAAGCAAATAAGGGAGTCATATGAAAATGATATTGCTTCTATGGATCTTCAAGCACATTTAATTC
CTGGATTAAATCTGAACGCCTTGGGTCTGTTCCCACCCACTTCAGGGATGCCACCTCCCACCTCAGGGCAGCCTTCAGCC
ATGACTCCTACCTACCCGCAGTTTGAGCAATCAGAAACGGAGACTGTTCATCTGTTTATCCAGGCTCTATCAGTCGGTGT
CATCATCGGCAAGCAGGGCCAAGCACATCAAGCAGCTTTCTCGCTTTGCCGGAGCTTCAATTAACATTGCTCCAGCAGAA
GCACCAGATGCTAAAGTGAGGATGGTAATGATCACTGGACCACCAGAGGCTCAGTTCAAGGCTCAGGGAAGAATTTATGG
AAAAACTAAAGAAGAAAATTTTGTTAGTCCTAAAGAAGAGGTTAAACTTGAAGCTTATATCACAGTGTCATCCTTTGTTG
CTGGCGGAGTTATTGGAAAAGGAGGCAAAATGGTGAATAAACTTCAGAATTTGCCAAGTGCAGAAGTTGTTGTCCCTCAT
GACCAGACACCTGATGAGAATGACCAAGTGGTTGTCAAAATAACTGGTCACTTCTATGCTTGCCAGGTTGCTCAGAGAAA
AATTCAGGCAATTCTGACTCAGGTAAAACAGCAC

Alignment

ORF - retro_ggor_2520 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.08 %
• Parental protein coverage: 52.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KLLQELTLYNPERTITVKGNVETCAKAEEEIMKKIRESYENDIASMNLQAHLIPGLNLNALGLFPPTSGM
          ...QELTLYNPE.TITVKGNVE.CAKAEEEIMK.IRESYENDIASM.LQAHLIPGLNLNALGLFPPTSGM
Retrocopy RCFQELTLYNPECTITVKGNVEACAKAEEEIMKQIRESYENDIASMDLQAHLIPGLNLNALGLFPPTSGM

Parental  PPPTSGPPSAMTPPYPQFEQSETETVHLFIPALSVGAIIGKQGQ-HIKQLSRFAGASIKIAPAEAPDAKV
          PPPTSG.PSAMTP.YPQFEQSETETVHLFI.ALSVG.IIGKQGQ.HIKQLSRFAGASI.IAPAEAPDAKV
Retrocopy PPPTSGQPSAMTPTYPQFEQSETETVHLFIQALSVGVIIGKQGQ>HIKQLSRFAGASINIAPAEAPDAKV

Parental  RMVIITGPPEAQFKAQGRIYGKIKEENFVSPKEEVKLEAHIRVPSFAAGRVIGKGGKTVNELQNLSSAEV
          RMV.ITGPPEAQFKAQGRIYGK.KEENFVSPKEEVKLEA.I.V.SF.AG.VIGKGGK.VN.LQNL.SAEV
Retrocopy RMVMITGPPEAQFKAQGRIYGKTKEENFVSPKEEVKLEAYITVSSFVAGGVIGKGGKMVNKLQNLPSAEV

Parental  VVPRDQTPDENDQVVVKITGHFYACQVAQRKIQEILTQVKQH
          VVP.DQTPDENDQVVVKITGHFYACQVAQRKIQ.ILTQVKQH
Retrocopy VVPHDQTPDENDQVVVKITGHFYACQVAQRKIQAILTQVKQH

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.53 RPM	0.05 RPM
SRP007412_cerebellum	0.08 RPM	0.16 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.04 RPM	0.08 RPM
SRP007412_liver	0.03 RPM	0.45 RPM
SRP007412_testis	1.24 RPM	1.76 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_2520 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2520 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002341	1 retrocopy	retro_chof_828,
Homo sapiens	ENSG00000136231	1 retrocopy	retro_hsap_3690,
Gorilla gorilla	ENSGGOG00000008872	1 retrocopy	retro_ggor_2495,
Gorilla gorilla	ENSGGOG00000010286	1 retrocopy	retro_ggor_2520 ,
Gorilla gorilla	ENSGGOG00000015035	2 retrocopies	retro_ggor_2679, retro_ggor_2748,
Nomascus leucogenys	ENSNLEG00000014780	1 retrocopy	retro_nleu_2277,
Pongo abelii	ENSPPYG00000017730	1 retrocopy	retro_pabe_3023,