General information for g11837.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Autophagy-related protein 9A.
Parent gene
- The parent gene g11837 is located on chr_1: 18687548..18690848 (+ strand)
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 | g11837 | g11837.t1 | TSS | g11837.t1 | 18687319 | 18687319 |
| chr_1 | g11837 | g11837.t1 | isoform | g11837.t1 | 18687548 | 18690848 |
| chr_1 | g11837 | g11837.t1 | exon | g11837.t1.exon1 | 18687548 | 18687683 |
| chr_1 | g11837 | g11837.t1 | cds | g11837.t1.CDS1 | 18687548 | 18687683 |
| chr_1 | g11837 | g11837.t1 | exon | g11837.t1.exon2 | 18687806 | 18687983 |
| chr_1 | g11837 | g11837.t1 | cds | g11837.t1.CDS2 | 18687806 | 18687983 |
| chr_1 | g11837 | g11837.t1 | exon | g11837.t1.exon3 | 18688269 | 18688610 |
| chr_1 | g11837 | g11837.t1 | cds | g11837.t1.CDS3 | 18688269 | 18688610 |
| chr_1 | g11837 | g11837.t1 | exon | g11837.t1.exon4 | 18688673 | 18688985 |
| chr_1 | g11837 | g11837.t1 | cds | g11837.t1.CDS4 | 18688673 | 18688985 |
| chr_1 | g11837 | g11837.t1 | exon | g11837.t1.exon5 | 18689046 | 18689224 |
| chr_1 | g11837 | g11837.t1 | cds | g11837.t1.CDS5 | 18689046 | 18689224 |
| chr_1 | g11837 | g11837.t1 | exon | g11837.t1.exon6 | 18689453 | 18690848 |
| chr_1 | g11837 | g11837.t1 | cds | g11837.t1.CDS6 | 18689453 | 18690848 |
| chr_1 | g11837 | g11837.t1 | TTS | g11837.t1 | 18691070 | 18691070 |
Sequences
>g11837.t1 Gene=g11837 Length=2544
ATGTCATATCAAGCAACTCGTCGTGCAGAAAATCCTTTTCAACAACACATACAAAATCCA
AATGATTCAGAAAATGATGATGATGATACATCGCATAATATAAAATTTACAATTCCAAAT
AAGAATGATGAGAAAGCTCAATGGAATCACATTACTGATTTGGATTCATTCTTTCGACGT
ATTTATAAGTATCATCAAAAAAGTGGATTTAAAGTCATAGCTCTTGAAGAGATTTTAGGA
CTCATTCAATTTGTTTTAGTTGTAGTTTTTATATTATTTGCTTGGAATTGCATTAACTAT
CCTGTGCTCTTTAAAGAAGAGCCTTTAGTGGGCAAAAATGCGACAAAATATACAATCAAT
GATGTATTATTTTCACCGGGCCAATGCAAAGAACGTTTCTCATTCTGGACGTATACTCTT
ATTGGCGTCTCTGCAATATTTTGGATTATTCGTGCCATCACAGTCTTTTTCCACATTGTA
CATAATTGGGATATTAGAAATTTCATGAAAATCGCTTTAAAAATAGACGACAATGAATTA
GAAAATTTCACATGGCATGAAATACAGAGACGCATTCGCGATGCACAGTCAGAAATTCAA
CTTTGTGTACATAAGAACAATCTTACAGAATTGGATATTTATCATCGTATTTTAAGATTT
CAAAATTACTTAATTGCCATGATTAATAAGTCAGTACTCCCATCAAAATTAAATATACCA
GTGTTTGGTGAAATTAATGTGCTCAGTAAATTACTCATTTATAATATTGAACTAATTCTC
TTTCGTGGACCATTCGCATGCTTTGAAAATAATTGGCATTTGAAAGAGGAGTTTAAAAGA
GCAACTAAAAGAGCTGACTTAGCAGCGCAATTGTCAAAACATATAGCCTGGTATGCACTA
GTCAATTTATTATTATCACCTCTTATTTTCCTGTGGCAAGTTCTATTTTTCTTCTTCAGT
TACGCACCGATTGTGAAGAAAGAACCAACATTTTTAGGAATGCGCACATGGTCTCAATAT
GGACGCTTATATCTTCGACATTTCAATGAACTTGATCATGAATTGGAAGCGCGTTTAAAT
CGTGCATATAGACCGGCTGTGAAATATGTTTCATCATTTTCCTCTGCGCTTTTAGTCGTC
ATTGCCAAATTCTGTATATTCACATTTGGGGGCCTGGGAATGTTTCTATTTACATTAGCA
ATAATCGATGAGGATGTTATTCAAGTAGAACATGTGTTACTCATAATTACAGTCTTTATG
GCTATTGCCTTTGGTGCTCTCAGTATAATCCCAGATGAAAATCAAATTTGGTGTCCGGAA
CAACTCATGAAAAATATTTTATGTCATGCACATTATTTAAAGCCTGAATGGCGTGGTTAT
GCACATACTACAAAAGTGTTGAGAGAATTTGAAGATTTCTTTCAACTAAAAGCTTTCTTT
TTGATCAACGAAATTTTTAGTCCTTTCTTAACATTTTTTGTATTAATGTTTTGTTTGCGA
CCTCGAGCCACTGAAATAGTTGATTTTCTCAGAAACTTTACTGTTTCAGTGTTGGGAGTT
GGTGATGTTTGTTCTTTTGCTCAAATGGAAATTAGAAAACATGGAAATCCTGAATGGCAA
GTAACTAATAGTAACGATGATTTATCACCGACAGTTGAGACAAATCAATACTATCAAGGT
GAAAATGGCAAAACAGAACTTTCTCTTGTACATTTTGCGCTCACAAATCCTCACTGGAAA
ATGTCGACAGAAGCAAAACAATTTCTTCGTGGTATACGAAAGCATGCAAAGCAAGATTTG
AATAAAACCAGAAATATTGCTGGCAATTTAGGTGCAACAGCAATGGGGCAAAGTTTAATG
TCTGTTGAAAGTTTAGGAGAGGAATACTCATCTGTTGTTCAATCCATTCTTCAAATTCAA
AATTTATCAACATCGCAGCATATGGGAATGTCAATGTATCAACAGCCGACATATAATCAA
ACTCAAGTTCCTATAACTCCTCCAAATACAGCAGTTACACAACAGCAGTCATCATCAATC
GCTCCAACATTCGATTTTGAACGAATGCTTCGTGATAATTTAACTGATGGATCAACAATG
ATGACAATGAGAAGTCAATTCTTACCAAATATTGATGAAGATGATGACTCTGATGACCAG
CAGAATCAAGAAAATGTACCTTCACAAGCTGTACCCTCAAATCGAAATGCTATTGGTATG
CATATGAGCATTCGAGGAAGTCTCTCGAAAAAGGAAGGACCAATAGAAGTTTCAAAACGT
GGACTCTTGTATAGTCTTTGTAATATACCACAAAATGAAGTAGCAATGTTCACACCAGAA
CTTACCACCGCAGATATGTGTCTAAGTACTCTCTATTTACATGAGTTGCATCACAAACAA
CATCTTCGACGAGGAGCACGATTAGAAGAGAGTCAAAGATTTCTTTGGCATCCACGACCA
CAAAGTTCATCACAATCACAAGAACCAACATCATTGCAATTAAATAACGAGCGAATACCA
TTACTTTCAAAAAGACCAACATAA
>g11837.t1 Gene=g11837 Length=847
MSYQATRRAENPFQQHIQNPNDSENDDDDTSHNIKFTIPNKNDEKAQWNHITDLDSFFRR
IYKYHQKSGFKVIALEEILGLIQFVLVVVFILFAWNCINYPVLFKEEPLVGKNATKYTIN
DVLFSPGQCKERFSFWTYTLIGVSAIFWIIRAITVFFHIVHNWDIRNFMKIALKIDDNEL
ENFTWHEIQRRIRDAQSEIQLCVHKNNLTELDIYHRILRFQNYLIAMINKSVLPSKLNIP
VFGEINVLSKLLIYNIELILFRGPFACFENNWHLKEEFKRATKRADLAAQLSKHIAWYAL
VNLLLSPLIFLWQVLFFFFSYAPIVKKEPTFLGMRTWSQYGRLYLRHFNELDHELEARLN
RAYRPAVKYVSSFSSALLVVIAKFCIFTFGGLGMFLFTLAIIDEDVIQVEHVLLIITVFM
AIAFGALSIIPDENQIWCPEQLMKNILCHAHYLKPEWRGYAHTTKVLREFEDFFQLKAFF
LINEIFSPFLTFFVLMFCLRPRATEIVDFLRNFTVSVLGVGDVCSFAQMEIRKHGNPEWQ
VTNSNDDLSPTVETNQYYQGENGKTELSLVHFALTNPHWKMSTEAKQFLRGIRKHAKQDL
NKTRNIAGNLGATAMGQSLMSVESLGEEYSSVVQSILQIQNLSTSQHMGMSMYQQPTYNQ
TQVPITPPNTAVTQQQSSSIAPTFDFERMLRDNLTDGSTMMTMRSQFLPNIDEDDDSDDQ
QNQENVPSQAVPSNRNAIGMHMSIRGSLSKKEGPIEVSKRGLLYSLCNIPQNEVAMFTPE
LTTADMCLSTLYLHELHHKQHLRRGARLEESQRFLWHPRPQSSSQSQEPTSLQLNNERIP
LLSKRPT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g11837.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - |
| 14 | g11837.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 29 | - |
| 11 | g11837.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 714 | 737 | - |
| 10 | g11837.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 722 | 736 | - |
| 13 | g11837.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 817 | 847 | - |
| 15 | g11837.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 817 | 840 | - |
| 2 | g11837.t1 | PANTHER | PTHR13038:SF14 | AUTOPHAGY-RELATED PROTEIN 9B | 43 | 828 | 9.2E-198 |
| 3 | g11837.t1 | PANTHER | PTHR13038 | APG9 AUTOPHAGY 9 | 43 | 828 | 9.2E-198 |
| 1 | g11837.t1 | Pfam | PF04109 | Autophagy protein Apg9 | 47 | 530 | 8.5E-154 |
| 17 | g11837.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 71 | - |
| 25 | g11837.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 72 | 95 | - |
| 21 | g11837.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 96 | 134 | - |
| 26 | g11837.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 135 | 160 | - |
| 19 | g11837.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 161 | 294 | - |
| 24 | g11837.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 295 | 319 | - |
| 20 | g11837.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 320 | 375 | - |
| 28 | g11837.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 376 | 400 | - |
| 18 | g11837.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 401 | 411 | - |
| 23 | g11837.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 412 | 430 | - |
| 22 | g11837.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 431 | 477 | - |
| 27 | g11837.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 478 | 499 | - |
| 16 | g11837.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 500 | 847 | - |
| 7 | g11837.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 72 | 94 | - |
| 9 | g11837.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 138 | 160 | - |
| 6 | g11837.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 303 | 325 | - |
| 8 | g11837.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 377 | 399 | - |
| 5 | g11837.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 412 | 431 | - |
| 4 | g11837.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 480 | 499 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0006914 | autophagy | BP |
KEGG
Orthology
- This transcript has been annotated with K17907 (autophagy-related protein 9)
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.
