General information for g6515.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Insulin gene enhancer protein isl-1.
Parent gene
- The parent gene g6515 is located on chr_2: 17413310..17419566 (- 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 | g6515 | g6515.t1 | TTS | g6515.t1 | 17412406 | 17412406 |
| chr_2 | g6515 | g6515.t1 | isoform | g6515.t1 | 17413310 | 17419566 |
| chr_2 | g6515 | g6515.t1 | exon | g6515.t1.exon1 | 17413310 | 17413594 |
| chr_2 | g6515 | g6515.t1 | cds | g6515.t1.CDS1 | 17413310 | 17413594 |
| chr_2 | g6515 | g6515.t1 | exon | g6515.t1.exon2 | 17413663 | 17413768 |
| chr_2 | g6515 | g6515.t1 | cds | g6515.t1.CDS2 | 17413663 | 17413768 |
| chr_2 | g6515 | g6515.t1 | exon | g6515.t1.exon3 | 17413939 | 17414059 |
| chr_2 | g6515 | g6515.t1 | cds | g6515.t1.CDS3 | 17413939 | 17414059 |
| chr_2 | g6515 | g6515.t1 | exon | g6515.t1.exon4 | 17416092 | 17416262 |
| chr_2 | g6515 | g6515.t1 | cds | g6515.t1.CDS4 | 17416092 | 17416262 |
| chr_2 | g6515 | g6515.t1 | exon | g6515.t1.exon5 | 17416337 | 17416657 |
| chr_2 | g6515 | g6515.t1 | cds | g6515.t1.CDS5 | 17416337 | 17416657 |
| chr_2 | g6515 | g6515.t1 | exon | g6515.t1.exon6 | 17419416 | 17419566 |
| chr_2 | g6515 | g6515.t1 | cds | g6515.t1.CDS6 | 17419416 | 17419566 |
| chr_2 | g6515 | g6515.t1 | TSS | g6515.t1 | NA | NA |
Sequences
>g6515.t1 Gene=g6515 Length=1155
ATGGCAGTGATTGAAAGCCAAATAAGTCAACATAACCAAGTACCAATTGGAGTAAATAAT
TATTGCAATAACGGATTAATCATGAATCATCATCAACAGCAGCAAATCAATTGTCATGAA
GACATTCATCCTATATTAGCAGCAAATATAAAGAAACAAAATTATTCGCATTGTGTAGGC
TGCGGAGGACAAATTCACGATCAATATATTTTACAAGTTGCACCAGATCTGGAATGGCAC
GCTGCATGCCTCAAATGTCAAGAGTGTCGTCAGTTCTTGGATGAAAGCTGTACGTGTTTT
GTACGCGATGGCAAGACATATTGCAAACGCGATTACGTTCGACTATTTGGTACCAAGTGT
GATAAGTGCGGAAATTCATTCTGTAAAAATGACTTTGTGATGCGAGCCAAGAGCAAAATT
TATCATATCGAGTGCTTTCGATGCACCGCCTGCTCACGTCATTTAAATCCAGGTGACGAA
TTTGCATTAAGGGATGGAAATTCGCTCTTCTGCAAAATGGATAACGATGCACTTGATAAA
TTACCAAATTCGGAAATGGATTCATCAGGAAATGAATTCCCAGACGGCAATTGCAAACTG
ACGGGTAGCAACAATAATTTAAGCGAATTTGGATCCATGTCGGACTCTGAAAGTGAGTCG
GGATCACATAAAAATATGCGAATTCGAGGTAAACCGCTAGGCTCAAATGATGGAAAAACA
CGTGTGAGAACGGTACTCAATGAGAAGCAATTACACACACTGACAACGTGGTTTCAAATG
AATCCCAAACCTGATGCATTGATGAAGGAACAGCTAGTAGAAATGACGGGACTTTCGCCA
CGAGTTATTCGTGTATGGTTTCAGAATAAGCGTTGCAAACAAAACAAGAAAGCAAATCAA
TTAAAAATTCAAATGGAACAAGAGAAAGAAATGAAACAAATTGGCTATGGACGAATGCAT
GGCATACCATTGATTGCAACGAGTCCAATTAGAAATGAAGAGCTACCGCTTAATGTGCAG
AGTTTTGAAGTCTCATCATTCCAGCCACAATGGAAAATGATATCGGATCTTGCCATACAT
GCCGATGCTAAAAGCAGTGAAATGATGAATTCACCGACATGCATTGATATTGTTAATCAG
GTAAACATCTATTGA
>g6515.t1 Gene=g6515 Length=384
MAVIESQISQHNQVPIGVNNYCNNGLIMNHHQQQQINCHEDIHPILAANIKKQNYSHCVG
CGGQIHDQYILQVAPDLEWHAACLKCQECRQFLDESCTCFVRDGKTYCKRDYVRLFGTKC
DKCGNSFCKNDFVMRAKSKIYHIECFRCTACSRHLNPGDEFALRDGNSLFCKMDNDALDK
LPNSEMDSSGNEFPDGNCKLTGSNNNLSEFGSMSDSESESGSHKNMRIRGKPLGSNDGKT
RVRTVLNEKQLHTLTTWFQMNPKPDALMKEQLVEMTGLSPRVIRVWFQNKRCKQNKKANQ
LKIQMEQEKEMKQIGYGRMHGIPLIATSPIRNEELPLNVQSFEVSSFQPQWKMISDLAIH
ADAKSSEMMNSPTCIDIVNQVNIY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g6515.t1 | CDD | cd09366 | LIM1_Isl | 58 | 112 | 5.43439E-36 |
| 12 | g6515.t1 | CDD | cd09374 | LIM2_Isl | 120 | 174 | 5.9562E-29 |
| 14 | g6515.t1 | CDD | cd00086 | homeodomain | 241 | 297 | 2.3019E-17 |
| 11 | g6515.t1 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 58 | 115 | 1.1E-42 |
| 10 | g6515.t1 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 116 | 178 | 1.1E-42 |
| 9 | g6515.t1 | Gene3D | G3DSA:1.10.10.60 | - | 234 | 300 | 2.4E-20 |
| 4 | g6515.t1 | PANTHER | PTHR24204 | INSULIN GENE ENHANCER PROTEIN | 28 | 380 | 1.5E-133 |
| 5 | g6515.t1 | PANTHER | PTHR24204:SF8 | TAILUP, ISOFORM A | 28 | 380 | 1.5E-133 |
| 3 | g6515.t1 | Pfam | PF00412 | LIM domain | 58 | 115 | 1.9E-13 |
| 2 | g6515.t1 | Pfam | PF00412 | LIM domain | 120 | 174 | 1.6E-12 |
| 1 | g6515.t1 | Pfam | PF00046 | Homeodomain | 241 | 294 | 1.6E-14 |
| 16 | g6515.t1 | ProSitePatterns | PS00478 | LIM zinc-binding domain signature. | 120 | 155 | - |
| 15 | g6515.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 272 | 295 | - |
| 22 | g6515.t1 | ProSiteProfiles | PS50023 | LIM domain profile. | 56 | 118 | 14.048 |
| 21 | g6515.t1 | ProSiteProfiles | PS50023 | LIM domain profile. | 119 | 181 | 9.92 |
| 20 | g6515.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 237 | 297 | 16.212 |
| 18 | g6515.t1 | SMART | SM00132 | lim_4 | 57 | 111 | 2.3E-11 |
| 17 | g6515.t1 | SMART | SM00132 | lim_4 | 119 | 174 | 3.0E-11 |
| 19 | g6515.t1 | SMART | SM00389 | HOX_1 | 239 | 301 | 2.4E-19 |
| 7 | g6515.t1 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 53 | 83 | 1.22E-5 |
| 6 | g6515.t1 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 85 | 151 | 1.85E-14 |
| 8 | g6515.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 224 | 297 | 6.42E-18 |
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:0003677 | DNA binding | MF |
| GO:0000981 | DNA-binding transcription factor activity, RNA polymerase II-specific | MF |
| GO:0006355 | regulation of transcription, DNA-templated | BP |
KEGG
Orthology
- This transcript has been annotated with K09370 (insulin gene enhancer protein ISL-1)
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. There were no conditions that were differentially expressed