Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g12535 g12535.t1 TTS g12535.t1 24280387 24280387
chr_1 g12535 g12535.t1 isoform g12535.t1 24280808 24297005
chr_1 g12535 g12535.t1 exon g12535.t1.exon1 24280808 24280963
chr_1 g12535 g12535.t1 cds g12535.t1.CDS1 24280808 24280963
chr_1 g12535 g12535.t1 exon g12535.t1.exon2 24281023 24281840
chr_1 g12535 g12535.t1 cds g12535.t1.CDS2 24281023 24281840
chr_1 g12535 g12535.t1 exon g12535.t1.exon3 24282060 24282442
chr_1 g12535 g12535.t1 cds g12535.t1.CDS3 24282060 24282442
chr_1 g12535 g12535.t1 exon g12535.t1.exon4 24282508 24282678
chr_1 g12535 g12535.t1 cds g12535.t1.CDS4 24282508 24282678
chr_1 g12535 g12535.t1 exon g12535.t1.exon5 24282764 24282978
chr_1 g12535 g12535.t1 cds g12535.t1.CDS5 24282764 24282978
chr_1 g12535 g12535.t1 exon g12535.t1.exon6 24283043 24283337
chr_1 g12535 g12535.t1 cds g12535.t1.CDS6 24283043 24283337
chr_1 g12535 g12535.t1 exon g12535.t1.exon7 24283416 24283524
chr_1 g12535 g12535.t1 cds g12535.t1.CDS7 24283416 24283524
chr_1 g12535 g12535.t1 exon g12535.t1.exon8 24283977 24284083
chr_1 g12535 g12535.t1 cds g12535.t1.CDS8 24283977 24284083
chr_1 g12535 g12535.t1 exon g12535.t1.exon9 24296914 24297005
chr_1 g12535 g12535.t1 cds g12535.t1.CDS9 24296914 24297005
chr_1 g12535 g12535.t1 TSS g12535.t1 NA NA

Sequences

>g12535.t1 Gene=g12535 Length=2346
ATGGATAACGGCTACGTTAAGCGTCCTACAATACTTCAATTTGAACATATTAAACATCAT
CCACAGTGTCACGAGGCATACAATTTTATCAGGGAATCATCAACATTATGGAATAGATCA
AAACTTGGTATTGTTGTGCCAGATGTACTTGTTCAAGATCTTTTTTATCAATTAAATCTT
CATCCTACAAAAGAGCAAATTAATGACATGCTTCGAAATGCAAAGCACTATTCGTCAAAT
TTAAAATTCTGCAATGGACTATCTTTTGGAGAATTCTCAGTACTTGCAGCTGATTATCGT
AAATTTAGCTCACGTACGAGTCAAAATGGACATCATCAACCATTCCAAATTACCTCATTA
TCACCGAAAAGTTCACTTCGGGTTAAAAAACAAATTTTCATTGATCAACATTTATCGACG
ACTACAAACACCATTAATAACACAACGACGGACGGCATTGCGAACAAAAGTAACAATGAA
GAGTCATCTAAAATTGAAACAACACCAGAAGTATTCTTAGGAGGCTCGTGTAATCCAACA
ACATGGCGTGCTGACGTTGCGATGCCTGAGTTAAAAAAACTTGGAATTTCTTTTTATAAC
CCGCAAGTTTCACAATGGACACCTGATCTACTGCAATTGGAGCATCGAGCAAAGATGAAA
GCACGAGTCTTGTTCTTTGTAATGGATTCTCAAACTCGAGCTTCGGCAGCAGCAATTGAG
GTGGCTCATATTGCAGGTCAAAACCAAAAGCCATTAATTCTCGTACTACAGCCTTATAAG
CGAAATCAGCAGATCTTTAATGAATCAATATCAGAAGAAGAATTTCTTGACCTCTCTCGA
AATCAGAAAATACTGAAGCAATTAGTCAGTCGTCGTGGACTTCCTGTGCACGAAAATATA
TTATTGGGACTTCAAAAGATCAAAAGCATTTTAGCTGGTGATGAAGGTCCATGTAGTAGT
CTGCCACAGTCTGTTGGTTCTCGATTAATCTCTATTCGACGATCCTTTGACCGTGTAATT
GATAGTGGTGAAATTGGTTTAACATTGAAACAATGCAATCAGCAATTATTATCACTCGGT
TATCGAAAGGATCTCATTTCAATTGAAAATTTAAAACGTATTCTAAGTTTAGTGCGCGAT
GTGCTTAATAATCGCAACGAATCGTCTGTAAGCTCTACTGAATCATCATCTTCATCAGAA
ATGTCAATGGCTGAAGTTGATTGGGAATCACCGATCATTACATTTGAAGAATTCTGTGTT
GTATCATCATATTTGTCTGTATTGCAACAAGAAATTGAAGACAATTGCTGCGTGTCACCC
ATTAAAGGAACAAATTTACCACCTCCGCCTATTTTTCTTACAAATACTCCAGAAGTTTTG
AATCAATATAGCAAACAGTGTTCACAAACAGATGAGAACACGATTGTTGGCATTTGCTCA
CAGCAACAACGTCATACTACTTTGAATCAAAACTTCACAGTTGATGGTAATGCAGCAATA
ACAGTGAAAGAAGAACGTGAAACAATTATTATGACAATGTCAAATGGACCAAGAAGTGAT
AGCAGTCGAGATAGTGGTACATCATCACCACAGCCAATAGAGAGCAAATTAGTGAATGGC
AATAGTGGCAGTTCATTAAATACTAAAATGTCAATTCATAATCGTCATGCAGATATCGGT
AGCACATCATCAACAAAAATTACGGACGATGATTATAATGATATTGATAGTGATTCAAAT
GATTCAGTCTTTAGCACAAGCAGTTCGCTTGAAATTGATGAAGATTCGATGTTCGAGGTT
AAAGATATTTATCTTGGTGGTAGTTGTCTATTGAGAACAAAATGGCGGCAAGACATTGCA
ATTCCATATTTAAAATCTAAAAATATCTCCTACTATCTTCCTACAATTCACGATAATCTC
ACATTGAAAGAAACAAAAAAAGCTAGAAAGTTTAATAGAGATAAAAATGAAAGTGGTGGA
GGCTATAGTTTGGAAGAGACTGTAAATGGAGATGATTTGATGTTTAATCCGAGAATTCTC
GATTCAAGTCGTGTTTTGCTGTTTGTTATAACAAATGAAACACGATCACTTGCACCAATG
ACACTTGCTGCACACTACATAGGGCTGGCCTATAATGTAGTTTTGTGCATACAAATGTTG
CCCGATAACTGTACTATTGGAAATGATAAGCTAACTCCATCAGCAATAAAAGACTATAAT
CGTGGTCGTACATACTTAAGAGATTTAGCAGAACGTCAAAATATTCCTGTATTCGATGAG
ATTAAACAAGCACTTGATTGTGCGATAGATAAAGTAAAACTGTCAAAACCTCGATGTTCT
GTTTAG

>g12535.t1 Gene=g12535 Length=781
MDNGYVKRPTILQFEHIKHHPQCHEAYNFIRESSTLWNRSKLGIVVPDVLVQDLFYQLNL
HPTKEQINDMLRNAKHYSSNLKFCNGLSFGEFSVLAADYRKFSSRTSQNGHHQPFQITSL
SPKSSLRVKKQIFIDQHLSTTTNTINNTTTDGIANKSNNEESSKIETTPEVFLGGSCNPT
TWRADVAMPELKKLGISFYNPQVSQWTPDLLQLEHRAKMKARVLFFVMDSQTRASAAAIE
VAHIAGQNQKPLILVLQPYKRNQQIFNESISEEEFLDLSRNQKILKQLVSRRGLPVHENI
LLGLQKIKSILAGDEGPCSSLPQSVGSRLISIRRSFDRVIDSGEIGLTLKQCNQQLLSLG
YRKDLISIENLKRILSLVRDVLNNRNESSVSSTESSSSSEMSMAEVDWESPIITFEEFCV
VSSYLSVLQQEIEDNCCVSPIKGTNLPPPPIFLTNTPEVLNQYSKQCSQTDENTIVGICS
QQQRHTTLNQNFTVDGNAAITVKEERETIIMTMSNGPRSDSSRDSGTSSPQPIESKLVNG
NSGSSLNTKMSIHNRHADIGSTSSTKITDDDYNDIDSDSNDSVFSTSSSLEIDEDSMFEV
KDIYLGGSCLLRTKWRQDIAIPYLKSKNISYYLPTIHDNLTLKETKKARKFNRDKNESGG
GYSLEETVNGDDLMFNPRILDSSRVLLFVITNETRSLAPMTLAAHYIGLAYNVVLCIQML
PDNCTIGNDKLTPSAIKDYNRGRTYLRDLAERQNIPVFDEIKQALDCAIDKVKLSKPRCS
V

Protein features from InterProScan

Transcript Database ID Name Start End E.value
3 g12535.t1 MobiDBLite mobidb-lite consensus disorder prediction 512 542 -
2 g12535.t1 PANTHER PTHR36300 RAW, ISOFORM A 28 773 1.0E-177
1 g12535.t1 Pfam PF15891 Nucleoside 2-deoxyribosyltransferase like 169 259 2.2E-18

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values