General information for g8338.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein transport protein Sec24B.
Parent gene
- The parent gene g8338 is located on chr_2: 29808168..29812008 (+ 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_2 | g8338 | g8338.t1 | TSS | g8338.t1 | 29807930 | 29807930 |
| chr_2 | g8338 | g8338.t1 | isoform | g8338.t1 | 29808168 | 29812008 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon1 | 29808168 | 29809361 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS1 | 29808168 | 29809361 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon2 | 29809440 | 29809566 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS2 | 29809440 | 29809566 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon3 | 29809628 | 29809969 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS3 | 29809628 | 29809969 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon4 | 29810032 | 29810189 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS4 | 29810032 | 29810189 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon5 | 29810246 | 29810319 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS5 | 29810246 | 29810319 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon6 | 29810383 | 29810534 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS6 | 29810383 | 29810534 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon7 | 29810603 | 29811222 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS7 | 29810603 | 29811222 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon8 | 29811287 | 29811471 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS8 | 29811287 | 29811471 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon9 | 29811538 | 29811635 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS9 | 29811538 | 29811635 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon10 | 29811696 | 29811834 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS10 | 29811696 | 29811834 |
| chr_2 | g8338 | g8338.t1 | exon | g8338.t1.exon11 | 29811897 | 29812008 |
| chr_2 | g8338 | g8338.t1 | cds | g8338.t1.CDS11 | 29811897 | 29812008 |
| chr_2 | g8338 | g8338.t1 | TTS | g8338.t1 | 29812453 | 29812453 |
Sequences
>g8338.t1 Gene=g8338 Length=3201
ATGCCTTCATCAAATAGTGATCAGACTTTATTAAACAATAATAATAATAGCAATTTGAAA
CCATTAGGAATCCAAAAAAGGCCAATGTATCCTCAACAAACTCCTATGCCTATGGCTCAA
CCAATGATGAATGCAACTCAGCAATTAACACAAATACAACCAAATCAGCAATTAAATTCG
TTTCCTGGAGTTCAACAAAATATACAACAGCAACCTCAGTTACAACAGCATCCTAAAGAG
AATCTTCAGCATGAAAACTTTTCACAACAGCAGCAATTGAGTTCAAGCATGAAAAATCTA
ACTCTTAATAATTCCAATTTCCCTCTTCAAATGCCTTCATCAAAGAGTGATCAGAATTTA
TTAAACAATAATAATAATAATAGCAATGGTTTCACATTAGGAATACAGAAAAGACCAATG
TATCCTCAACAAACTCCTTTGCCTATCGCTCAACCAATGATGAATCCAACTCCGACTCAA
TTTCAACAACAATTACAACCAAATCAACAGATTAATTCATTTCCTGGAGTTCAACAGCAA
CCTCTGTTACAACAGCAGCCTAGAGAGAATCTTCAACATGAAAACTTTCCACAACAGCAG
CCGCAAATGAGTGCAAGCATGAAAAATCTAACTCTTAATAATTCTGTTGTGCCCAATTTG
CCTCTTCAAATGCCTTCATCAAAGAGTGATCAGAATTTATTAAACAATAATAATAATGTG
AAACCATTAGGAATGCAGAAAAGGCCAATGTATCCTCAACAAATTCCTATGCCTATGGCT
CAACCAATGATGAATGCAACTCAGCAACCGACTCAATTTCAACAACAATTACAACCAAAT
CAGCAGTTTAATTCATTTCCTGGAGTTCAACAAAATATACAACAACAACCTAGAGGGAAT
CTTCAATACCAAAACTTTCCACAACAGCCACAACAACAACCAAATGTTGTTCATCAAGGT
TTTAATCAAATATGGGGAAGAGAGACCATTGATTTGATGCAAAATCGTCACATTTTGCCA
CAAACTAAAGTCACTCCACCACCGATTAAATTAAATCATCAATTTCATGAGGCAACAAAT
TGTAGCAGCGATATTTTTAGATGTACATTGACTAAAATTCCAGAGTCAAATTCATTACTT
CAAAAATCAAGATTACCATTAGGAATTCTCATTCATCCTTATAGAGATTTAAGTAATCTT
CCTGTTATCAGCTGTTCAACAATTGTTCGCTGTCGAGTGTGTCGCACTTATATCAATCCA
TTCGTCTTTTTTGTAGATAGTAAAAAATGGAAATGCAATTTATGTTATCGAATTAATGAA
TTGCCTGAGGAATTTCAATATGATCCAGTTAGTAAAACTTATGGTGATCCAACAAGACGA
CCTGAAATTCGTTCGAGTACAATAGAATTTATAGCACCATCTGAATATATGCTAAGACCA
CCACAGCCAGCTGTCTATTTATTCGTTCTCGATGTATCATCATTAGCTCAACAAAGTGGA
TATCTCGATGTAGTATGTCAAACGATACAGGAGCAGTTAGATAATTTGCCTGGTGATGCA
CGAACACAAGTTGGTTTCATTGCATTCAACAGTGCAGTGCATTTTTATAATATTGCAGAA
AATTTCAATCAACCACACGAAATAACTGTACTAGAAGTAGACGATGTTTTTCTACCGTGT
CCGGACAATTTGCTTGTGAATTTAAAAGAATGTCGTGAGCTTATCAATGACCTTTTGCAA
CAGCTACCAAAACGTTTTGCAAATGAACACGATAATCAGAGTGCATTAGGTGCTGCACTT
CAAGCAGCATTTAAATTGATGAGTCCAACTGGAGGACGAGTTTCAGTTTTTCAAACATGT
CTACCTAATTACGGACCTGGTGCTTTACAATCACGTGAGGATCCAAATAATAGATCTTCA
AAGGACGTTCAACATTTAGGGCCAGCAACGGATTTTTATAAGCGTTTAGCTTTAGATTGT
TCTGGTCAACAAATTGCAGTAGATTTATTTTTACTCAACAGCCAGTATAGTGATTTATCG
ACATTGTCTGGCATAAGTAAATTTAGTGGTGGAGCAATTCATCATTTTCCGCTATTCAAT
ATCAATAAGCCACAGCAAGTGACAGAATTTCAACGAGCTTTAACGCGATATCTAACACGT
AAAATTGGATTCGAGTCAGTCATGCGAGTGCGATGTACTCGCGGTCTTAGTATTCATACA
TTCCACGGGAATTTCTTCGTACGTTCGACAGATCTACTCTCATTGCCAAATGTCAATCCA
GATGCCGGTTTTGCAATGCAAATTACATATGAAGAAAGTTTAGCGGACGTAAAAACAGTT
TGTTTCCAAGCGGCATTGTTATATACGAGTAGTAAAGCAGAGAGGAGAATACGAGTTCAT
ACATTATGTTTGCCTGTTACTGAAAGTTTGACAGAAGTTATGCATTCGGCAGATCAGCAA
TGTATCATTGGTTTATTAGCTAAAATGGCAGTTGATCGCTCACTGAGCTCTAATATAAGT
GACGCACGTGATGTCTTTATTAATGCAACAGTCGATGTGTTTAGTGCGTTTAAAATTGCT
CAAAATCTGCCATCTGGTGCAAGCGGTCTAATAGCTCCTCAAAATCTCGCATTATTTCCT
CTTTATATCTTAGCATTATTAAAACAGATGGCTTTTAGAACAGGAACGAGTACGAGATTA
GATGATCGTGTATTTGCAATGTGTCAAATGAAATCGTTACCTTTGGACCAATTGATTCGT
TACATTTATCCAGATTTCTATTTACTTGATCCACTTTTCACTGAAGAAGGAGATAAAGTT
GATCCACCTCGATTACAATTATCTGCTGAAAGACTCGATTCACGTTCAATATTTTTATTG
GACAATGGTGTAAATATATACATTTATGTTGGCTCAAATACTAATCCTAGTGTAATAAAG
AATGTTTTTGGTAAAAATTCAGTAAATGAAATTCCTGATGTGTGCTACAGTTTACCAAAT
CTTGAGACTCCATCCAGTGAATCTTTACAAGAGTTTATTAACACATTGAATGAGGAAAAA
CCTTATAATGCTACTATTCAAATTATTCGGGATACAAGTCCATGCCGAAATCTATTTGTT
CAACATTTCGTTGATGACCGTAATGAAAATAGTCTGAGCTATTATGAATTTTTGCAGCAT
CTGCGAACGCAAGTCAAATAA
>g8338.t1 Gene=g8338 Length=1066
MPSSNSDQTLLNNNNNSNLKPLGIQKRPMYPQQTPMPMAQPMMNATQQLTQIQPNQQLNS
FPGVQQNIQQQPQLQQHPKENLQHENFSQQQQLSSSMKNLTLNNSNFPLQMPSSKSDQNL
LNNNNNNSNGFTLGIQKRPMYPQQTPLPIAQPMMNPTPTQFQQQLQPNQQINSFPGVQQQ
PLLQQQPRENLQHENFPQQQPQMSASMKNLTLNNSVVPNLPLQMPSSKSDQNLLNNNNNV
KPLGMQKRPMYPQQIPMPMAQPMMNATQQPTQFQQQLQPNQQFNSFPGVQQNIQQQPRGN
LQYQNFPQQPQQQPNVVHQGFNQIWGRETIDLMQNRHILPQTKVTPPPIKLNHQFHEATN
CSSDIFRCTLTKIPESNSLLQKSRLPLGILIHPYRDLSNLPVISCSTIVRCRVCRTYINP
FVFFVDSKKWKCNLCYRINELPEEFQYDPVSKTYGDPTRRPEIRSSTIEFIAPSEYMLRP
PQPAVYLFVLDVSSLAQQSGYLDVVCQTIQEQLDNLPGDARTQVGFIAFNSAVHFYNIAE
NFNQPHEITVLEVDDVFLPCPDNLLVNLKECRELINDLLQQLPKRFANEHDNQSALGAAL
QAAFKLMSPTGGRVSVFQTCLPNYGPGALQSREDPNNRSSKDVQHLGPATDFYKRLALDC
SGQQIAVDLFLLNSQYSDLSTLSGISKFSGGAIHHFPLFNINKPQQVTEFQRALTRYLTR
KIGFESVMRVRCTRGLSIHTFHGNFFVRSTDLLSLPNVNPDAGFAMQITYEESLADVKTV
CFQAALLYTSSKAERRIRVHTLCLPVTESLTEVMHSADQQCIIGLLAKMAVDRSLSSNIS
DARDVFINATVDVFSAFKIAQNLPSGASGLIAPQNLALFPLYILALLKQMAFRTGTSTRL
DDRVFAMCQMKSLPLDQLIRYIYPDFYLLDPLFTEEGDKVDPPRLQLSAERLDSRSIFLL
DNGVNIYIYVGSNTNPSVIKNVFGKNSVNEIPDVCYSLPNLETPSSESLQEFINTLNEEK
PYNATIQIIRDTSPCRNLFVQHFVDDRNENSLSYYEFLQHLRTQVK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 21 | g8338.t1 | CDD | cd01479 | Sec24-like | 481 | 722 | 4.0042E-116 |
| 20 | g8338.t1 | Gene3D | G3DSA:2.30.30.380 | - | 347 | 465 | 1.2E-282 |
| 19 | g8338.t1 | Gene3D | G3DSA:2.60.40.1670 | - | 361 | 806 | 1.2E-282 |
| 16 | g8338.t1 | Gene3D | G3DSA:3.40.50.410 | - | 483 | 720 | 1.2E-282 |
| 18 | g8338.t1 | Gene3D | G3DSA:1.20.120.730 | - | 807 | 1062 | 1.2E-282 |
| 17 | g8338.t1 | Gene3D | G3DSA:3.40.20.10 | Severin | 924 | 1058 | 1.2E-282 |
| 14 | g8338.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 22 | - |
| 15 | g8338.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 23 | - |
| 13 | g8338.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 66 | 95 | - |
| 6 | g8338.t1 | PANTHER | PTHR13803 | SEC24-RELATED PROTEIN | 56 | 1065 | 0.0 |
| 7 | g8338.t1 | PANTHER | PTHR13803:SF42 | PROTEIN TRANSPORT PROTEIN SEC24B | 56 | 1065 | 0.0 |
| 1 | g8338.t1 | Pfam | PF04810 | Sec23/Sec24 zinc finger | 408 | 444 | 5.7E-13 |
| 2 | g8338.t1 | Pfam | PF04811 | Sec23/Sec24 trunk domain | 481 | 718 | 3.7E-76 |
| 4 | g8338.t1 | Pfam | PF08033 | Sec23/Sec24 beta-sandwich domain | 723 | 807 | 7.5E-19 |
| 3 | g8338.t1 | Pfam | PF04815 | Sec23/Sec24 helical domain | 818 | 919 | 3.6E-27 |
| 5 | g8338.t1 | Pfam | PF00626 | Gelsolin repeat | 940 | 1013 | 3.5E-8 |
| 8 | g8338.t1 | SUPERFAMILY | SSF81995 | beta-sandwich domain of Sec23/24 | 244 | 817 | 3.27E-70 |
| 10 | g8338.t1 | SUPERFAMILY | SSF82919 | Zn-finger domain of Sec23/24 | 397 | 480 | 1.96E-23 |
| 12 | g8338.t1 | SUPERFAMILY | SSF53300 | vWA-like | 481 | 721 | 2.47E-74 |
| 11 | g8338.t1 | SUPERFAMILY | SSF81811 | Helical domain of Sec23/24 | 818 | 923 | 1.2E-30 |
| 9 | g8338.t1 | SUPERFAMILY | SSF82754 | C-terminal, gelsolin-like domain of Sec23/24 | 932 | 1065 | 5.23E-26 |
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:0006886 | intracellular protein transport | BP |
| GO:0030127 | COPII vesicle coat | CC |
| GO:0008270 | zinc ion binding | MF |
| GO:0006888 | endoplasmic reticulum to Golgi vesicle-mediated transport | BP |
KEGG
Orthology
- This transcript has been annotated with K14007 (protein transport protein SEC24)
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.
