Gene loci information

Transcript annotation

  • This transcript has been annotated as Huntingtin-interacting protein 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_4 g15259 g15259.t1 TTS g15259.t1 4673809 4673809
chr_4 g15259 g15259.t1 isoform g15259.t1 4673987 4680546
chr_4 g15259 g15259.t1 exon g15259.t1.exon1 4673987 4674301
chr_4 g15259 g15259.t1 cds g15259.t1.CDS1 4673987 4674301
chr_4 g15259 g15259.t1 exon g15259.t1.exon2 4674360 4674429
chr_4 g15259 g15259.t1 cds g15259.t1.CDS2 4674360 4674429
chr_4 g15259 g15259.t1 exon g15259.t1.exon3 4674487 4674988
chr_4 g15259 g15259.t1 cds g15259.t1.CDS3 4674487 4674988
chr_4 g15259 g15259.t1 exon g15259.t1.exon4 4675064 4675445
chr_4 g15259 g15259.t1 cds g15259.t1.CDS4 4675064 4675445
chr_4 g15259 g15259.t1 exon g15259.t1.exon5 4675674 4676129
chr_4 g15259 g15259.t1 cds g15259.t1.CDS5 4675674 4676129
chr_4 g15259 g15259.t1 exon g15259.t1.exon6 4676530 4676985
chr_4 g15259 g15259.t1 cds g15259.t1.CDS6 4676530 4676985
chr_4 g15259 g15259.t1 exon g15259.t1.exon7 4677491 4677940
chr_4 g15259 g15259.t1 cds g15259.t1.CDS7 4677491 4677940
chr_4 g15259 g15259.t1 exon g15259.t1.exon8 4678324 4678433
chr_4 g15259 g15259.t1 cds g15259.t1.CDS8 4678324 4678433
chr_4 g15259 g15259.t1 exon g15259.t1.exon9 4678599 4678652
chr_4 g15259 g15259.t1 cds g15259.t1.CDS9 4678599 4678652
chr_4 g15259 g15259.t1 exon g15259.t1.exon10 4678721 4678912
chr_4 g15259 g15259.t1 cds g15259.t1.CDS10 4678721 4678912
chr_4 g15259 g15259.t1 exon g15259.t1.exon11 4678966 4679754
chr_4 g15259 g15259.t1 cds g15259.t1.CDS11 4678966 4679754
chr_4 g15259 g15259.t1 exon g15259.t1.exon12 4679875 4679966
chr_4 g15259 g15259.t1 cds g15259.t1.CDS12 4679875 4679966
chr_4 g15259 g15259.t1 exon g15259.t1.exon13 4680440 4680546
chr_4 g15259 g15259.t1 cds g15259.t1.CDS13 4680440 4680546
chr_4 g15259 g15259.t1 TSS g15259.t1 4680819 4680819

Sequences

>g15259.t1 Gene=g15259 Length=3975
ATGACAAACGCAAACACATTAACTGATAAAGAATATTATCAATTGACAATAAGCGTCGGT
AAGGCGTTGAATCCGCAAGAACTTCCAATTAAACAAAAGCATGTAAGAGCTGCGATAATA
GCAACATGGATGTCAAATGGTGGACATGCTTTCTGGGCTATTGCGATACGACAACAATTG
CAAGATAATCGCATTACTGCATGGAAATTTCTCTACATGCTTCACAAAATCCTTCGTGAA
GGACATCCAGCAGTCATTGCACATTCAATGAGACATCGAACAATGTTGACAGAATTAGGA
AAACTTTGGGGTCATTTAAATGATGGCTATGGCATTTGTATTTTGCAATACACAAAACTG
CTAGTAATGAAGCTCAATTTTCATGATAGAAATGCTAGATTTCCTGGAAATCTTGTTCTA
AAACGTGGAGAACTTGAAAAAATCGCAGGCAATGACATCAATATTTATTTCCAACTAGCA
ATTGAAATGTTTGATTATTTGGATGAAATTATTGCATTGCAAGCAACAATTTTCAATTCA
ATCACGACTTTTGCAGTGTCATCAATGACTGCAGCTGGTCAATGCCGTCTTGTGCCGCTT
ATTCCATGCATTCAAGATTCAAATCAACTTTATGATTTTTGTGTACGACTCATGTTCCTT
TTACATGCCAATTTACAAGAAGACTTGCTTGTCCATCATCGTGAACGTTTCAGAACAATT
TTTAGACAGCTCAATAGTTTCTATAAGCAAGCTGGACAACTTCAATATTTTCATAATCTT
ATCACTGTTCCACATTTGCCACATAATCCACCAAACTTCCTTGTTCAAGCAGATCTAGGC
AATTATACTGCACCAAAAATTGTGCTTATGAATGAAAACAATGACAATATTAGTGAAAGT
GATGCGAGTTCAATTGTAGGTGATTTAGTTGATACTAATGCTGTTGATTCACCACAGCCC
GTTGAAGAAACTCCACCATTGCCACCAAAAATTGATTACGAACGCCTTTTAAATGAACGA
GATGAAATGATTAACAAATTAAGGCATGAGCAAGAAGTTCAATTGAGTAAAGCAAGAAGA
GCTTTTAGTGAGAAAATTGAAAAAGAAAATCAACTGCAAGAACAAGTTATGAAATTGACA
ACAGAATGTTCAGATCTTCAAAATGAAATTGCAAATTTAAAATTGCAAAAGCAAGAATTG
GAATTAAAAGCTGAAACAGCGCCAGAACTTGAACAAAAAGTTCAAGTTGAAGAAGAAAAA
GCAAAACAAACTGAAGAAAAATTCCAGAAATTGAAAAACATGTATACACAGATACGTGAT
GAACATATAAAATTGTTAAGAAAGCATGATGAAACCAACAAAACATTGCAAGAGAAAACT
AAAGAATTGCAAGAAATTTCACAAGAACATGAAGAAAGTAAAATGAAATTACAAGAAATT
GAAGTTCAAAAATCAACAATTTCTGAAAATTATCAAAAGAGCAGCATTGAAACTGAACAA
TTGAAGCAACAATTTACAAACATCGAGTATGAAAAGAAGAATTTAATGGATCAAATTCAA
AGTATTGAATCAAAGAAATCAGCAGAAATTGCTGAACTGAGGATAAATTTTGAGGCAGTT
GAAACAAAATGTAAGCAATTGGAAGAGCAGCTTGAAAAAGTTGAAGAAGAAAAGAAAATT
TTGATTTCTGAAAGTGAAGAAAAATTGAGTGAAAATGAAGAAAAGTTTGAACAATTAAAA
GTTGAAAAAGAAAAGTTAGAGGAAGAAATGAAAATGAAAGAACAAAAGCTTATGAAAGAA
CTTGAGTTGACTAATAATACTCTCGAAGAAAAAAGCAAAGAGTTGGAAGAAATTTCGAAA
CAACATGAAGAAAGTAAAGAAAGATTGCAAGAAATTGAAAGTGAAAAATTGATTGTTACT
GAAAATTATCAAAAATCCTCAATCGAAAGCGAAGAATTAAAAGAACAGATTTTGAATGCT
GAGGAAGAAAAGAAAAATTTAATTGATCAAATGCAAACCATTGAGTCAGAAAAATCAACA
GAAATTGCTGAATTAAAAGTCAATCTTGAAGATTTTGAAAATAAATGCAAGGAACTAGAA
GAGCAACTTGAAAAACTTGAAGAGGAAAAGAAAATTCTTATTTCAGAAAGCGAAGAAAAA
TTGAATGAAAATGAAGGAAAATACGAGCAGTTAAAAACTGAAAAAGAAAATTTAGAGGAA
GAAATGAAAATGAAGGAACAAAAATTTTTGGAAGAACTTGAGTTGACAAAAAATAATCTT
GAAGAGAAAACAAAAGAATTGGATGAAATTTCAAAACAATATGAAGAAAGCAAAGAAAGA
TTGTTAGAAATTGAAAGTGAAAAATTGATTGTTACTGAAAATTACCAAAAGTCTACAATC
GAAAATGATGATTTGAAGCAGGAAATTTTAAATGCTGAAGAAGAAAAGAAAAATTTAATT
GATCAAATGCAAAGTATTGAATCAGAAAAATCAGCAGAAATTGCTGAATTAAAAGTCAAT
CTTGAAGAAAGTGAAAATAAATGTAAAAATTTAGAAGAAGAAATCACAAAAATGGAAGAT
GAAAAGAAACTTTTGATTTCTGAAAATGAAGAAAAATTGAATGAAATTGAAGGAAAATTC
GAAGAACTAAAAACAGAAAAGGAAAATTTGGAAGAAGAAATAAAAGAAAAAGAATTGAAA
TTTTTGGAGGAACTTGAAGCAACCAAAAATGAATTGACAACACAAAGTGCAAATCAAATT
AGCGAAATCAAAAATAATAATGAACTTTCACTTCGTGCCTTAATGGAAGCTTTATTGAAA
GGTTGTGAAGAAATTAGTCTACGATCAGTGCAGGAAAATGAGACACTTGGAACACAAACA
AGTGCTGCTTATTATATTATGATTATGCAAGAACTTCAAGATTTATTGGATAAATTAAAA
GTTACATATGGAGGCTACAGTGAGAATTGCAGTGAAAATGCTGAAGCACTTGCTGTTACT
GTTGTTAATAGTGGACATATGTTATCATTGGCTTTTGATCGTGGAATGACTATTGCTAAT
GCATCAACTAATATGGTCTCTGGTGAAAAAATAGCAACAGAAATAAAAGAATGTGGCAAC
ATTAGTGCCAATTTCTTTAAATTATTAGCATCAAATAGCGATAATGCAACAGTCAATGAC
TCTCTGCAACAACTCAAAGACAAACTCTACTCAATAACAAACATGATTGGAGATTTATCA
AGTAATAAAGATGAGATTGAAAAACTTGAAGAACTTGTAGAAGCTGAATTGAATGGGATG
GATAAAGCTATTGAAGAAGCATCAAAGAAAATCATGGAAATGCTTGCACAATCACGTGCA
TCTGATACAGGAATTAAACTTGAAGTTAATGAAAAAATTCTCGACTCTTGCACTGATTTG
ATGAAATTTATTAAAGTTTTAGTGCAAAAATCAAGAAAAGTTCAAGCTGAGATTATTGCA
ACTGGTAAAGGAACTGCTACAGCCAAAGAATTTTATAAGAGAAATCATCAATGGACTGAA
GGTTTAATTTCTGCTGCCGGATCAGTTGCTGCTGCTGCTAAACTTCTTGTTGAATCAGCT
AATAAAGCTGTAAGTGAACAATCAAAACATACTTTAGATGTTGTTGTTGCTGCACAAGAA
ATTGCAGCATCAGTAGCAACACTTGTAGTAGCATCAAGAGTGAAAGCATCACGTGACAGT
CAAAGTTTACGTGAATTAACACTTGCATCAAAGGATGTAACTCAATCAACATCAATGGTT
GTTGCAACAGCTAAAAATTGCAGTCAACAACTTGAAGAAAATCAAGAACTTGATTTTACA
AAACTTTCAATTCATCAAGCTAAAACAAGAGAAATGGAATTACAAGTTAAAATTCTCGAA
CTTGAGCAGTCAATACAAACAGAAAGGATGAAATTGGCAGCATTACGTCGTCAAAATTAT
CAAAATGGCGATTAA

>g15259.t1 Gene=g15259 Length=1324
MTNANTLTDKEYYQLTISVGKALNPQELPIKQKHVRAAIIATWMSNGGHAFWAIAIRQQL
QDNRITAWKFLYMLHKILREGHPAVIAHSMRHRTMLTELGKLWGHLNDGYGICILQYTKL
LVMKLNFHDRNARFPGNLVLKRGELEKIAGNDINIYFQLAIEMFDYLDEIIALQATIFNS
ITTFAVSSMTAAGQCRLVPLIPCIQDSNQLYDFCVRLMFLLHANLQEDLLVHHRERFRTI
FRQLNSFYKQAGQLQYFHNLITVPHLPHNPPNFLVQADLGNYTAPKIVLMNENNDNISES
DASSIVGDLVDTNAVDSPQPVEETPPLPPKIDYERLLNERDEMINKLRHEQEVQLSKARR
AFSEKIEKENQLQEQVMKLTTECSDLQNEIANLKLQKQELELKAETAPELEQKVQVEEEK
AKQTEEKFQKLKNMYTQIRDEHIKLLRKHDETNKTLQEKTKELQEISQEHEESKMKLQEI
EVQKSTISENYQKSSIETEQLKQQFTNIEYEKKNLMDQIQSIESKKSAEIAELRINFEAV
ETKCKQLEEQLEKVEEEKKILISESEEKLSENEEKFEQLKVEKEKLEEEMKMKEQKLMKE
LELTNNTLEEKSKELEEISKQHEESKERLQEIESEKLIVTENYQKSSIESEELKEQILNA
EEEKKNLIDQMQTIESEKSTEIAELKVNLEDFENKCKELEEQLEKLEEEKKILISESEEK
LNENEGKYEQLKTEKENLEEEMKMKEQKFLEELELTKNNLEEKTKELDEISKQYEESKER
LLEIESEKLIVTENYQKSTIENDDLKQEILNAEEEKKNLIDQMQSIESEKSAEIAELKVN
LEESENKCKNLEEEITKMEDEKKLLISENEEKLNEIEGKFEELKTEKENLEEEIKEKELK
FLEELEATKNELTTQSANQISEIKNNNELSLRALMEALLKGCEEISLRSVQENETLGTQT
SAAYYIMIMQELQDLLDKLKVTYGGYSENCSENAEALAVTVVNSGHMLSLAFDRGMTIAN
ASTNMVSGEKIATEIKECGNISANFFKLLASNSDNATVNDSLQQLKDKLYSITNMIGDLS
SNKDEIEKLEELVEAELNGMDKAIEEASKKIMEMLAQSRASDTGIKLEVNEKILDSCTDL
MKFIKVLVQKSRKVQAEIIATGKGTATAKEFYKRNHQWTEGLISAAGSVAAAAKLLVESA
NKAVSEQSKHTLDVVVAAQEIAASVATLVVASRVKASRDSQSLRELTLASKDVTQSTSMV
VATAKNCSQQLEENQELDFTKLSIHQAKTREMELQVKILELEQSIQTERMKLAALRRQNY
QNGD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g15259.t1 CDD cd17006 ANTH_N_HIP1_like 15 128 5.97405E-60
13 g15259.t1 Coils Coil Coil 333 353 -
15 g15259.t1 Coils Coil Coil 355 441 -
12 g15259.t1 Coils Coil Coil 446 483 -
17 g15259.t1 Coils Coil Coil 498 787 -
16 g15259.t1 Coils Coil Coil 795 922 -
14 g15259.t1 Coils Coil Coil 1086 1117 -
11 g15259.t1 Coils Coil Coil 1284 1318 -
9 g15259.t1 Gene3D G3DSA:1.25.40.90 - 2 132 8.2E-15
10 g15259.t1 Gene3D G3DSA:1.20.1410.10 I/LWEQ domain 1078 1282 3.9E-71
3 g15259.t1 PANTHER PTHR10407 HUNTINGTIN INTERACTING PROTEIN 1 6 616 3.6E-255
5 g15259.t1 PANTHER PTHR10407:SF15 HUNTINGTIN INTERACTING PROTEIN 1 6 616 3.6E-255
4 g15259.t1 PANTHER PTHR10407 HUNTINGTIN INTERACTING PROTEIN 1 610 1322 3.6E-255
6 g15259.t1 PANTHER PTHR10407:SF15 HUNTINGTIN INTERACTING PROTEIN 1 610 1322 3.6E-255
1 g15259.t1 Pfam PF07651 ANTH domain 15 278 1.7E-63
2 g15259.t1 Pfam PF01608 I/LWEQ domain 1172 1321 1.4E-46
21 g15259.t1 ProSiteProfiles PS50942 ENTH domain profile. 7 135 20.339
22 g15259.t1 ProSiteProfiles PS50945 I/LWEQ domain profile. 1081 1323 59.542
19 g15259.t1 SMART SM00273 enth_2 13 135 1.8E-25
20 g15259.t1 SMART SM00307 ILWEQ_1 1124 1323 1.4E-78
8 g15259.t1 SUPERFAMILY SSF48464 ENTH/VHS domain 15 130 3.6E-24
7 g15259.t1 SUPERFAMILY SSF109885 I/LWEQ domain 1086 1276 2.55E-52

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:0003779 actin binding MF
GO:0030276 clathrin binding MF
GO:0006897 endocytosis BP
GO:0005543 phospholipid binding MF

KEGG

Orthology

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.

Raw TPM values