Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Insulin gene enhancer protein isl-1.

Parent gene

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 g6514 g6514.t1 TSS g6514.t1 17405238 17405238
chr_2 g6514 g6514.t1 isoform g6514.t1 17405503 17411081
chr_2 g6514 g6514.t1 exon g6514.t1.exon1 17405503 17405644
chr_2 g6514 g6514.t1 cds g6514.t1.CDS1 17405503 17405644
chr_2 g6514 g6514.t1 exon g6514.t1.exon2 17407966 17408103
chr_2 g6514 g6514.t1 cds g6514.t1.CDS2 17407966 17408103
chr_2 g6514 g6514.t1 exon g6514.t1.exon3 17408479 17408703
chr_2 g6514 g6514.t1 cds g6514.t1.CDS3 17408479 17408703
chr_2 g6514 g6514.t1 exon g6514.t1.exon4 17410238 17410352
chr_2 g6514 g6514.t1 cds g6514.t1.CDS4 17410238 17410352
chr_2 g6514 g6514.t1 exon g6514.t1.exon5 17410412 17410574
chr_2 g6514 g6514.t1 cds g6514.t1.CDS5 17410412 17410574
chr_2 g6514 g6514.t1 exon g6514.t1.exon6 17410633 17410854
chr_2 g6514 g6514.t1 cds g6514.t1.CDS6 17410633 17410854
chr_2 g6514 g6514.t1 exon g6514.t1.exon7 17410914 17411081
chr_2 g6514 g6514.t1 cds g6514.t1.CDS7 17410914 17411081
chr_2 g6514 g6514.t1 TTS g6514.t1 17411467 17411467

Sequences

>g6514.t1 Gene=g6514 Length=1173
ATGGCAGAGATTCAAAGTGGCCTGCAGCAGCCACAAAGTCAACTTCTGATACATCGCGGA
ATACAGCCGTCATTAGTGATTAATCATCATGTCGATATGGATAATCATCAATCTGGACTT
GACATTCATCCAGAGAATATCAAAAAACAACGACTATCACTTTGTGTAGGCTGCGGAGGA
CAAATTCACGATCAATATATTTTGCGAGTAGCACCAGATCTAGAATGGCATGCTGCATGC
CTCAAATGTCAAGAGTGTCGTCAGTTCTTGGATGAAAGCTGTGATGAATTTGCATTACGA
GATGGCGGCGTACTATATTGCAAGAGTGATCACAATGTGCTAGAGAGTTCAACACAAGTA
ATTTCAATGGAGCACAACAATAATAACTCAATAATGAATAATAATATTAATATCAGTAGT
AACAATAAGCCCACAACAATGAGCAGCAATTCAAACTCTGGAAATTTAAGCAATAATCAT
TCAAGTGAACTTGGCTCGCTATCGGAATCGGAAAGTGAAAGTGGATCTCATAAAAGTATA
CGTAAATCATCAAGTATTTCGGATGGCAAACCAACACGTGTGAGGACGGTATTGAATGAA
AAGCAGCTTCATACTTTAAGAACGTGCTACAGCCAAAATGCTCGACCTGATGCCCTCATG
AAGGAACAATTAGTTGAAATGACAGGTCTATCACCACGAGTCATTCGTGTATGGTTTCAA
AATAAACGTTGCAAAGATAAAAAGAAAGCTATTGCCATGAAAATGCAAATGCAGCAAGAA
AAAGAAGGTCGAAAAATGAGTTATGGAACAATGCAAGGAATCCCAATGGTTGCAAGTTCG
CCAATACGTCATGAATCGCCTCTTAATATGCATGGCCATGAAGTATCTGCAATGTCCTAT
CAGCCACCTTGGAAAGCACTGTCAGATTTCGCTCTACATGCTGACCTTGAAGGAAGCAAT
GGTCCAGTTAATCATTCACCTGCTTTTCAACATCTTATGAATCAGATGCATGGCTATGAC
ATGACTCCAATGAATATGAATCATCATGGACCACAGCCACAACAACCTCTTGCTCAAATG
ACACCTATTGACCCAAGTTCACATCATCCCGATAGTACTGATTCATATGTCACTTACCTC
GAGAGTGATGAAAGCACGCAAGGATCTCCTTAA

>g6514.t1 Gene=g6514 Length=390
MAEIQSGLQQPQSQLLIHRGIQPSLVINHHVDMDNHQSGLDIHPENIKKQRLSLCVGCGG
QIHDQYILRVAPDLEWHAACLKCQECRQFLDESCDEFALRDGGVLYCKSDHNVLESSTQV
ISMEHNNNNSIMNNNINISSNNKPTTMSSNSNSGNLSNNHSSELGSLSESESESGSHKSI
RKSSSISDGKPTRVRTVLNEKQLHTLRTCYSQNARPDALMKEQLVEMTGLSPRVIRVWFQ
NKRCKDKKKAIAMKMQMQQEKEGRKMSYGTMQGIPMVASSPIRHESPLNMHGHEVSAMSY
QPPWKALSDFALHADLEGSNGPVNHSPAFQHLMNQMHGYDMTPMNMNHHGPQPQQPLAQM
TPIDPSSHHPDSTDSYVTYLESDESTQGSP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g6514.t1 CDD cd09366 LIM1_Isl 55 111 1.13488E-28
12 g6514.t1 CDD cd00086 homeodomain 193 249 1.08928E-16
10 g6514.t1 Gene3D G3DSA:2.10.110.10 Cysteine Rich Protein 48 127 3.5E-14
9 g6514.t1 Gene3D G3DSA:1.10.10.60 - 190 254 2.1E-19
17 g6514.t1 MobiDBLite mobidb-lite consensus disorder prediction 144 197 -
18 g6514.t1 MobiDBLite mobidb-lite consensus disorder prediction 360 390 -
4 g6514.t1 PANTHER PTHR24204 INSULIN GENE ENHANCER PROTEIN 21 94 4.6E-104
6 g6514.t1 PANTHER PTHR24204:SF8 TAILUP, ISOFORM A 21 94 4.6E-104
3 g6514.t1 PANTHER PTHR24204 INSULIN GENE ENHANCER PROTEIN 95 342 4.6E-104
5 g6514.t1 PANTHER PTHR24204:SF8 TAILUP, ISOFORM A 95 342 4.6E-104
2 g6514.t1 Pfam PF00412 LIM domain 55 112 1.3E-11
1 g6514.t1 Pfam PF00046 Homeodomain 193 248 1.4E-14
14 g6514.t1 ProSitePatterns PS00478 LIM zinc-binding domain signature. 55 90 -
13 g6514.t1 ProSitePatterns PS00027 ‘Homeobox’ domain signature. 224 247 -
20 g6514.t1 ProSiteProfiles PS50023 LIM domain profile. 53 117 11.89
19 g6514.t1 ProSiteProfiles PS50071 ‘Homeobox’ domain profile. 189 249 15.856
15 g6514.t1 SMART SM00132 lim_4 54 110 2.1E-9
16 g6514.t1 SMART SM00389 HOX_1 191 253 2.0E-19
7 g6514.t1 SUPERFAMILY SSF57716 Glucocorticoid receptor-like (DNA-binding domain) 50 80 2.85E-5
8 g6514.t1 SUPERFAMILY SSF46689 Homeodomain-like 173 249 4.28E-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 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