General information for g7715.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Laminin subunit alpha.
Parent gene
- The parent gene g7715 is located on chr_2: 25424952..25435427 (+ 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 | g7715 | g7715.t2 | TSS | g7715.t2 | 25422739 | 25422739 |
| chr_2 | g7715 | g7715.t2 | isoform | g7715.t2 | 25423700 | 25424951 |
| chr_2 | g7715 | g7715.t2 | exon | g7715.t2.exon1 | 25423700 | 25423978 |
| chr_2 | g7715 | g7715.t2 | cds | g7715.t2.CDS1 | 25423700 | 25423978 |
| chr_2 | g7715 | g7715.t2 | exon | g7715.t2.exon2 | 25424044 | 25424178 |
| chr_2 | g7715 | g7715.t2 | cds | g7715.t2.CDS2 | 25424044 | 25424178 |
| chr_2 | g7715 | g7715.t2 | exon | g7715.t2.exon3 | 25424250 | 25424880 |
| chr_2 | g7715 | g7715.t2 | cds | g7715.t2.CDS3 | 25424250 | 25424880 |
| chr_2 | g7715 | g7715.t2 | exon | g7715.t2.exon4 | 25424947 | 25424951 |
| chr_2 | g7715 | g7715.t2 | cds | g7715.t2.CDS4 | 25424947 | 25424951 |
| chr_2 | g7715 | g7715.t2 | TTS | g7715.t2 | NA | NA |
Sequences
>g7715.t2 Gene=g7715 Length=1050
ATGAGTGGCTTAAGCCACTTTAATAATTTGATGGCTTTATCAGCAATTTTGTTGATAATT
CTATTACCACTCGCTTATTCTGAAACATTGACACCGCCCTATTTCAATTTGGCTGAAGGA
AGAAAAATTACTGCAAGTTCAACATGCGGTGTAGATATAGATGGACCTGAGCTTTACTGT
AAATTGGTCGGTTCACACACAGATGATCAGCAGAATCAGACAATTGCCGAGGATCAATTT
CATTTTTCAAAAGGTGGTCATGTTGTTATTCAAGGACAGCAATGCGACTATTGTACAGCA
GAATCACATCCGGTTGAAAATGCAATTGATGGAACTGAAAAATGGTGGCAATCTCCTCCA
CTTTCACGTGGTATGAAATATAATGAAGTCAACTTGACAATTGACTTTGGACAAGAGTTT
CATGTCGCATATATTTTCATTCGAATGGGAAATTCACCACGTCCTGGTTTATGGACACTT
GAAAAATCGAGTGATTATGGAAAAACGTGGACACCATGGCAACATTTTTCTGATTCAGAG
ACAGATTGTGAAATTTATTTTGGTAGAGATTCTTTAAAACCGATTACAAAAGATGACGAT
GTTATTTGTACAACAGAGTTTTCAAAGATCGTTCCATTAGAAAGTGGCGAAATTATCGTT
CGTCTTTTAAATTCTCGTCCATCAGCCAACAATTATTTCAATTCAACAGTACTTCAAGAG
TGGTCTAGAGCAACAAACATTCGTATTCGTCTTTTGAGAACTAAAAATTTGCTGGGACAT
CTCATGTCAGTTGCTCGTCAAGATCCAACAGTTACCCGTCGTTATTTCTATTCTATTAAA
GATATTTCAATAGGTGGACGTTGTGTGTGTAATGGTCATGCAAATACTTGTGTATTAGAT
CCAAGAAGCAGAGAAAGTAACATTCGCTTACTTGCATGTTCATGTCAACATAACACTTGT
GGAACACAATGTGAAACTTGTTGCGAGGGTTTTGAACAAAAGAAATGGAGACAAAATACA
AATGCTCGTCCATTTCAATGTGAACCATGT
>g7715.t2 Gene=g7715 Length=350
MSGLSHFNNLMALSAILLIILLPLAYSETLTPPYFNLAEGRKITASSTCGVDIDGPELYC
KLVGSHTDDQQNQTIAEDQFHFSKGGHVVIQGQQCDYCTAESHPVENAIDGTEKWWQSPP
LSRGMKYNEVNLTIDFGQEFHVAYIFIRMGNSPRPGLWTLEKSSDYGKTWTPWQHFSDSE
TDCEIYFGRDSLKPITKDDDVICTTEFSKIVPLESGEIIVRLLNSRPSANNYFNSTVLQE
WSRATNIRIRLLRTKNLLGHLMSVARQDPTVTRRYFYSIKDISIGGRCVCNGHANTCVLD
PRSRESNIRLLACSCQHNTCGTQCETCCEGFEQKKWRQNTNARPFQCEPC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g7715.t2 | CDD | cd00055 | EGF_Lam | 287 | 331 | 1.13664E-5 |
| 7 | g7715.t2 | Gene3D | G3DSA:2.60.120.1490 | - | 73 | 315 | 4.8E-95 |
| 8 | g7715.t2 | Gene3D | G3DSA:2.10.25.10 | Laminin | 316 | 350 | 4.2E-6 |
| 2 | g7715.t2 | PANTHER | PTHR10574 | NETRIN/LAMININ-RELATED | 28 | 350 | 1.1E-152 |
| 3 | g7715.t2 | PANTHER | PTHR10574:SF261 | LAMININ SUBUNIT ALPHA-5 | 28 | 350 | 1.1E-152 |
| 1 | g7715.t2 | Pfam | PF00055 | Laminin N-terminal (Domain VI) | 31 | 286 | 5.9E-73 |
| 10 | g7715.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 27 | - |
| 11 | g7715.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 11 | - |
| 12 | g7715.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 12 | 22 | - |
| 13 | g7715.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 23 | 27 | - |
| 9 | g7715.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 28 | 350 | - |
| 17 | g7715.t2 | ProSiteProfiles | PS51117 | Laminin N-terminal domain profile. | 26 | 287 | 52.533 |
| 16 | g7715.t2 | SMART | SM00136 | LamNT_2 | 24 | 286 | 3.0E-134 |
| 4 | g7715.t2 | SUPERFAMILY | SSF49785 | Galactose-binding domain-like | 79 | 175 | 1.0E-4 |
| 5 | g7715.t2 | SUPERFAMILY | SSF57196 | EGF/Laminin | 288 | 347 | 2.59E-7 |
| 6 | g7715.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 27 | - |
| 15 | g7715.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 26 | - |
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
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. There were no conditions that were differentially expressed