General information for g17016.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Serpin B11.
Parent gene
- The parent gene g17016 is located on chr_4: 12164152..12166408 (- 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_4 | g17016 | g17016.t1 | isoform | g17016.t1 | 12164152 | 12166408 |
| chr_4 | g17016 | g17016.t1 | exon | g17016.t1.exon1 | 12164152 | 12164418 |
| chr_4 | g17016 | g17016.t1 | cds | g17016.t1.CDS1 | 12164152 | 12164418 |
| chr_4 | g17016 | g17016.t1 | exon | g17016.t1.exon2 | 12164719 | 12165299 |
| chr_4 | g17016 | g17016.t1 | cds | g17016.t1.CDS2 | 12164719 | 12165299 |
| chr_4 | g17016 | g17016.t1 | exon | g17016.t1.exon3 | 12165357 | 12165570 |
| chr_4 | g17016 | g17016.t1 | cds | g17016.t1.CDS3 | 12165357 | 12165570 |
| chr_4 | g17016 | g17016.t1 | exon | g17016.t1.exon4 | 12166046 | 12166146 |
| chr_4 | g17016 | g17016.t1 | cds | g17016.t1.CDS4 | 12166046 | 12166146 |
| chr_4 | g17016 | g17016.t1 | exon | g17016.t1.exon5 | 12166399 | 12166408 |
| chr_4 | g17016 | g17016.t1 | cds | g17016.t1.CDS5 | 12166399 | 12166408 |
| chr_4 | g17016 | g17016.t1 | TSS | g17016.t1 | 12166451 | 12166451 |
| chr_4 | g17016 | g17016.t1 | TTS | g17016.t1 | NA | NA |
Sequences
>g17016.t1 Gene=g17016 Length=1173
ATGTTAAAAGTTTTAATATTCGCTTCTTGTATGAGTTTTAATTACTTTGCTTTTGGACAA
GATTCAACGTTTATGCAAGCACAACAGAGTTTTGCTCTTGAATTGTATGCAAATGTTTCA
GGTCCTGAGTATTTAATAAATTCTGTATTATCACCAATTTCCGTTGACATTTCTCTTTCG
GTTCTTCTTGTTGGATCAAGTGGTTTTACATTTAAACAACTTTTGAATGGTCTAAAATAT
CCAGCAAATTATAGCATCAACTTTGTACAAAGCAATTCAAATTTATTAATAAAAAACATG
CAAAAAGTTGGTGGACTTGAATTTGTCACAAGACTTTACTTAAGTACAAAATATTCACTC
CAAAACATTTACAAGTCAGCAATTCAAAAATATTTTAATAGCAGCATTAGTTTAATGGAT
TTTTCTGATCCAACATCAGTTAAAACCATCAATGATTTTGTTACAGCATCAACTCATGGA
ATGATTCAAAATATGCTTGATGAAGGTGACATTTCGCCTAAAACTGCACTAGTTCTTGTC
AATTGCATTTATTTTAAAGGAACATGGGTTTATCAATTTGATAAAAGCAAAATATCCCAA
GGAAATTTTAGAATAAATAAAACAAATTCAATTACAGTTGATTACATGTACATGACAGCA
CCTGTAAATATGGGAACTGTTGATGCTTTAAAAGCTACCGTTATTGAACTTCCTTATGTC
AACACAAACTTAACATTAACAATTGTTCTACCTTTATCCGGTTATAGTTTGAAAAATTTA
ATGAAAGCTGCAAGAAGTTATGATTGGAGAAAAGTTTCAAATATGTTATACAATCAATCA
GTTGAAGTAACAATCCCTAAATTTAATGCAACTTTAAAACAATATTTAAATAACCCTTTA
ATAAATATGGGAATGGATTCACTTTTTAATGCTTCAGCAACACAGTTTGATCATATTGCA
CATGACTACGGAACTTCCGTAAAAATAACACTCGATTATGTCCTACATGAAGCTGTAATT
AATGTCGATGAAGAAGGAACTACTGCTGCTGCTGCAACTGTTTCTTCCGCTCGATCATTG
CCACCAAGTTTCTCAGCAACTCGACCATTTTTATATTTTTTGAAAACTAGTTCAACTATT
TATTTTATTGGACAATTTACTGGACAAAGTTAA
>g17016.t1 Gene=g17016 Length=390
MLKVLIFASCMSFNYFAFGQDSTFMQAQQSFALELYANVSGPEYLINSVLSPISVDISLS
VLLVGSSGFTFKQLLNGLKYPANYSINFVQSNSNLLIKNMQKVGGLEFVTRLYLSTKYSL
QNIYKSAIQKYFNSSISLMDFSDPTSVKTINDFVTASTHGMIQNMLDEGDISPKTALVLV
NCIYFKGTWVYQFDKSKISQGNFRINKTNSITVDYMYMTAPVNMGTVDALKATVIELPYV
NTNLTLTIVLPLSGYSLKNLMKAARSYDWRKVSNMLYNQSVEVTIPKFNATLKQYLNNPL
INMGMDSLFNASATQFDHIAHDYGTSVKITLDYVLHEAVINVDEEGTTAAAATVSSARSL
PPSFSATRPFLYFLKTSSTIYFIGQFTGQS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g17016.t1 | CDD | cd00172 | serpin | 27 | 385 | 1.34498E-88 |
| 7 | g17016.t1 | Gene3D | G3DSA:3.30.497.10 | Antithrombin | 47 | 339 | 4.9E-86 |
| 6 | g17016.t1 | Gene3D | G3DSA:2.30.39.10 | - | 185 | 384 | 4.9E-86 |
| 2 | g17016.t1 | PANTHER | PTHR11461 | SERINE PROTEASE INHIBITOR, SERPIN | 26 | 387 | 6.0E-62 |
| 3 | g17016.t1 | PANTHER | PTHR11461:SF180 | LEUKOCYTE ELASTASE INHIBITOR | 26 | 387 | 6.0E-62 |
| 1 | g17016.t1 | Pfam | PF00079 | Serpin (serine protease inhibitor) | 27 | 386 | 3.6E-79 |
| 9 | g17016.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 19 | - |
| 10 | g17016.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 11 | g17016.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 11 | - |
| 12 | g17016.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 12 | 19 | - |
| 8 | g17016.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 20 | 390 | - |
| 15 | g17016.t1 | SMART | SM00093 | serpin2 | 33 | 389 | 1.2E-61 |
| 4 | g17016.t1 | SUPERFAMILY | SSF56574 | Serpins | 20 | 387 | 9.69E-83 |
| 5 | g17016.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 19 | - |
| 14 | g17016.t1 | SignalP_GRAM_NEGATIVE | SignalP-TM | SignalP-TM | 1 | 19 | - |
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:0005615 | extracellular space | CC |
| GO:0004867 | serine-type endopeptidase inhibitor activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
