General information for g6513.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 g6513 is located on chr_2: 17396545..17397563 (+ 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 | g6513 | g6513.t1 | TSS | g6513.t1 | 17395590 | 17395590 |
| chr_2 | g6513 | g6513.t1 | isoform | g6513.t1 | 17395768 | 17397563 |
| chr_2 | g6513 | g6513.t1 | exon | g6513.t1.exon1 | 17395768 | 17395909 |
| chr_2 | g6513 | g6513.t1 | cds | g6513.t1.CDS1 | 17395768 | 17395909 |
| chr_2 | g6513 | g6513.t1 | exon | g6513.t1.exon2 | 17396052 | 17396333 |
| chr_2 | g6513 | g6513.t1 | cds | g6513.t1.CDS2 | 17396052 | 17396333 |
| chr_2 | g6513 | g6513.t1 | exon | g6513.t1.exon3 | 17396545 | 17396751 |
| chr_2 | g6513 | g6513.t1 | cds | g6513.t1.CDS3 | 17396545 | 17396751 |
| chr_2 | g6513 | g6513.t1 | exon | g6513.t1.exon4 | 17396814 | 17397103 |
| chr_2 | g6513 | g6513.t1 | cds | g6513.t1.CDS4 | 17396814 | 17397103 |
| chr_2 | g6513 | g6513.t1 | exon | g6513.t1.exon5 | 17397175 | 17397369 |
| chr_2 | g6513 | g6513.t1 | cds | g6513.t1.CDS5 | 17397175 | 17397369 |
| chr_2 | g6513 | g6513.t1 | exon | g6513.t1.exon6 | 17397432 | 17397563 |
| chr_2 | g6513 | g6513.t1 | cds | g6513.t1.CDS6 | 17397432 | 17397563 |
| chr_2 | g6513 | g6513.t1 | TTS | g6513.t1 | 17397641 | 17397641 |
Sequences
>g6513.t1 Gene=g6513 Length=1248
ATGGCAGACATTAAAGGTGGCTTACTACAGCCACAATCATTTAATCATCATCGGCCATAT
CATCATCACGATGAATTTATACAACCAACTTTAATCGAAAACGAAAATTGTGGAAATTAT
GCATACAATCAGAGTGGAATAAAAATTCATGATCAATATATTTTGCGAGTAGCACCTGAT
TTGGAATGGCATGCTGCATGCCTCAAATGTCAAGAGTGTCGTCAGTTCTTGGATGAAAGC
TGTACGTGTTTTGTACGCGATGGCAAGACATATTGCAAACGCGATTACGTTCGACTATTT
GGTACCAAGTGTGATAAGTGCGGAAATTCATTCTGTAAAAATGACTTTGTGATGCGAGCT
AAAACTAAAATTTATCATATTAAATGTTTTCGATGCTCAGCTTGTGAAAGACAATTGAAT
CCAGGTGATGAATTTGCATTGCGTGATGGTGGTGCACTATATTGTAAAAATGATCACGAT
CAAATAGAGAAAATGAAGTCTGAAGAAAGATCTTCTTGTCAGTTAGCTGAGTTGAATAAT
AATAAACCTACACAAGAATCTACAATTAAGCAACAATCAACGTGCAATATTAAACGTTCA
TCTTCAAGTGATGATTTTGGTTCATTGTCCGATTCTGACAGTGAATCCGACTCGTATAAA
TCTTCATCAAATCGACGTGAAAAGCATACGCATACATTAAATGGCAAGCCAGCTCGAGTG
AGAACAGTGTTAAATGAGAAGCAACTAAGTATGCTAAGAGCATGTTATCAGATGAATTCA
AGACCAGACTCATTGGTTAAAGAGCAGCTAGTCGAAATGACGGGACTGTCTGCTCGAGTC
GTCCGTGTTTGGTTCCAAAATAAACGATGCAAAGATAAGAAAAAGGCCATTGAGGTAAAA
ATGCAGATGCATCAAGAAAAGGAAGGAAAAATTTCATTCATGCAAGGCATTCCATTGATT
GCATCGCCACCAGTGAAACATGAGTCGCCAGTCAATCATCAAGGTTATGAAGTCACTAAA
TATCAACCACCATGGAGAACTTTCTCAGACTTTGCCATGCAAAATGACTCTGATGATTGC
ACGTCAACTCCCGCATTTCAACATTTGGTCAATCAGCTTCATGGTTACGATTTAAGTGAA
GAGGCGGCACTACACAATTACAATGATCACTCGATGGACTGGCATAAGAATCGTGAAAGT
ACTGACTCATATCAGGAAAGCGAGGGAAGCATTTCCGGCTCACTATAA
>g6513.t1 Gene=g6513 Length=415
MADIKGGLLQPQSFNHHRPYHHHDEFIQPTLIENENCGNYAYNQSGIKIHDQYILRVAPD
LEWHAACLKCQECRQFLDESCTCFVRDGKTYCKRDYVRLFGTKCDKCGNSFCKNDFVMRA
KTKIYHIKCFRCSACERQLNPGDEFALRDGGALYCKNDHDQIEKMKSEERSSCQLAELNN
NKPTQESTIKQQSTCNIKRSSSSDDFGSLSDSDSESDSYKSSSNRREKHTHTLNGKPARV
RTVLNEKQLSMLRACYQMNSRPDSLVKEQLVEMTGLSARVVRVWFQNKRCKDKKKAIEVK
MQMHQEKEGKISFMQGIPLIASPPVKHESPVNHQGYEVTKYQPPWRTFSDFAMQNDSDDC
TSTPAFQHLVNQLHGYDLSEEAALHNYNDHSMDWHKNRESTDSYQESEGSISGSL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g6513.t1 | CDD | cd09366 | LIM1_Isl | 46 | 96 | 1.29885E-30 |
| 12 | g6513.t1 | CDD | cd09374 | LIM2_Isl | 104 | 159 | 9.04837E-30 |
| 14 | g6513.t1 | CDD | cd00086 | homeodomain | 239 | 295 | 1.37194E-14 |
| 11 | g6513.t1 | Coils | Coil | Coil | 287 | 307 | - |
| 9 | g6513.t1 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 48 | 99 | 6.4E-42 |
| 10 | g6513.t1 | Gene3D | G3DSA:2.10.110.10 | Cysteine Rich Protein | 100 | 172 | 6.4E-42 |
| 8 | g6513.t1 | Gene3D | G3DSA:1.10.10.60 | - | 236 | 299 | 9.9E-19 |
| 20 | g6513.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 182 | 239 | - |
| 21 | g6513.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 182 | 217 | - |
| 22 | g6513.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 218 | 234 | - |
| 4 | g6513.t1 | PANTHER | PTHR24204 | INSULIN GENE ENHANCER PROTEIN | 45 | 380 | 1.9E-132 |
| 5 | g6513.t1 | PANTHER | PTHR24204:SF8 | TAILUP, ISOFORM A | 45 | 380 | 1.9E-132 |
| 3 | g6513.t1 | Pfam | PF00412 | LIM domain | 48 | 99 | 5.6E-12 |
| 2 | g6513.t1 | Pfam | PF00412 | LIM domain | 104 | 160 | 3.6E-14 |
| 1 | g6513.t1 | Pfam | PF00046 | Homeodomain | 239 | 294 | 9.8E-15 |
| 19 | g6513.t1 | ProSitePatterns | PS00478 | LIM zinc-binding domain signature. | 104 | 139 | - |
| 18 | g6513.t1 | ProSitePatterns | PS00027 | ‘Homeobox’ domain signature. | 270 | 293 | - |
| 25 | g6513.t1 | ProSiteProfiles | PS50023 | LIM domain profile. | 32 | 101 | 9.554 |
| 24 | g6513.t1 | ProSiteProfiles | PS50023 | LIM domain profile. | 102 | 165 | 12.91 |
| 23 | g6513.t1 | ProSiteProfiles | PS50071 | ‘Homeobox’ domain profile. | 235 | 295 | 15.823 |
| 16 | g6513.t1 | SMART | SM00132 | lim_4 | 46 | 95 | 2.2E-5 |
| 15 | g6513.t1 | SMART | SM00132 | lim_4 | 103 | 158 | 6.8E-13 |
| 17 | g6513.t1 | SMART | SM00389 | HOX_1 | 237 | 299 | 3.5E-18 |
| 6 | g6513.t1 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 69 | 135 | 4.04E-14 |
| 7 | g6513.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 221 | 295 | 2.95E-17 |
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