Gene loci information

Transcript annotation

  • This transcript has been annotated as Tetratricopeptide repeat protein 37.

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 g7169 g7169.t1 TSS g7169.t1 21769445 21769445
chr_2 g7169 g7169.t1 isoform g7169.t1 21769468 21773407
chr_2 g7169 g7169.t1 exon g7169.t1.exon1 21769468 21769557
chr_2 g7169 g7169.t1 cds g7169.t1.CDS1 21769468 21769557
chr_2 g7169 g7169.t1 exon g7169.t1.exon2 21769620 21772074
chr_2 g7169 g7169.t1 cds g7169.t1.CDS2 21769620 21772074
chr_2 g7169 g7169.t1 exon g7169.t1.exon3 21772152 21772634
chr_2 g7169 g7169.t1 cds g7169.t1.CDS3 21772152 21772634
chr_2 g7169 g7169.t1 exon g7169.t1.exon4 21772690 21773018
chr_2 g7169 g7169.t1 cds g7169.t1.CDS4 21772690 21773018
chr_2 g7169 g7169.t1 exon g7169.t1.exon5 21773081 21773407
chr_2 g7169 g7169.t1 cds g7169.t1.CDS5 21773081 21773407
chr_2 g7169 g7169.t1 TTS g7169.t1 21774368 21774368

Sequences

>g7169.t1 Gene=g7169 Length=3684
ATGAGCTCAAAAGAAGTTAAAAATTTGCTAAAAGAAGCTCGAGAGGCAATAAAAAATAAA
GAATTTCAATTAGCAATTAAAAAATGCAAGGAAGCCTTAACTCTCGATAAACAAAACGGT
ATGACTTATATACTTTTGGGTGCAGCATATACAGAATCAGATAAATTAGAGGCTGTAAAG
TGCTTGCGAAAAGCAATGGATATTTCAAGTGATTACAAACTTTTAGCCTTACAAGGACTT
TCAAATTGTGTTTCACCTAAAGAATTGCCTGATGTGCTTGAAGAGCTTTTAAGTCTTACT
CCAGAAAAATATGCAGATTACTACTTTAAACTTAACAATTTAGTAATGAATGAGCAAATT
TTAGATCATACTAAAATAATTACAATTTTTTGCGCTGAAATCAAAAATGAAAATGAAAGA
AAGTTCTTAGCATTGAAATATTTACTCAATATCTTTATGAAAAACAGAGAATTGGCTTTC
GAGAAATTCAGTGACGAATTTTTAGAGTGTCTAGAAGTTGGAATCAAAGATAAAAACCAT
GTTTATCACGTAGATATTTATCAATCCTATTTTAAAGTTCTTCATCAAAAGCAACGATTC
ATTGAATTAGTAAAAGCAGCAGAGGAAATGGTAGAAATGTATCCCAGTAGTGTTATTCCT
CTTGAATGGATTTGCAAAATGTATATCGAAAATGAGAATAATCAATCGTTTCAAATCAAT
GAGTGTTTGAAATCAAATTTTGGTATATATGTTGAACGTTTATTAGAAATCAATCCCAAC
TCTGTTCTTGGTTTAAGTGCAAGTGCTTTAATTAAATTTTCAATAGGAGATATGGCTAGT
TCACGAGATATTTTATTGAAAATCAATCAATTACAACCTAATTGGTCAACATGTTTGAAA
AAATTAGCAATCACTCATCAAAAACTAAGAGCTTATCTACTTGCAGAGCTAGTTTATCGA
AAATTAAAGAATGTTGACTTAGAATTAGCAGAAATGCTTATAGAGCAAATGATTGAAGGA
AAAGTTAAGGAGGGAATCATTTTGTGTGAAAAGATGATGAAAAATGAACCAAAGGCACTA
GAGTTGATTGCAAAAGGAAATATTTATTTAGGGAGTTTCAGTGAAGCAGAAAGTTTTATG
GAAAACAATAAACTTTTAAAAGCAACAGCTCATCGTATTAAGGGAGAGTATGAGCTTGCT
ATAGAAACATTAAAGGATATTGAAAATCATGATGCATTCCTTGAAATTGGTAGAAACCTT
TTTGAATTACAAAAGTACGAAGAATCATTAGTAAATATTCTCAAAGCTACTAAATTGGAT
CCGAATAATTCAGAATGTTTTTATTGGCTTGGTAAAATTTATATGATTTCTAACGATGAG
CATCGAAGTCAAAAATGCCTTGAAAAATGCTTACATCTCAATGCACAGAATGAGAAAGCT
ATTACAATTCTTTCATCTATCTATCGTAAAAACAAGGAATGGGATAATAATTTACAGATT
TTAGAAAACTCTGTGCAGTCTGTGAGTGGTGTTTATCAGAAAACTGCATTCTTTCAATTA
GGCCTTCATCATCTTGCTCAACAAAGTTACGATAATGCAATTACTGCATTCAGAAATGTC
CTCAAATATGACAAAAATAGTGTGGAATGCTGGGAGGCTTTAGCTGACAGTTATTTGGCA
CGTGGTTCATTTAATTCTGCCTTAAATGTATTTCAAAAAAGTGTAGAATTAAATCCTAAT
AATCATTATGCAAAACTTCAAATTGCAAAAATCAAATATACATTGCAACAATATCAAGAA
TCAATTGCGGATTATGAAGAACTTCTTAAAATTATTCCAGACTATTTGCCTGCTTTATAT
GGAATTGCAGAAAGCCATTTTGGAAGGGCTTGTTATTTACACGAAAACCATCGAAGTGGA
CGAGCTCGCGACCATTGTCAAAGTACACTTTCCTATCTTGAACAAGCTATTAAACTTGAG
CCATCATTTCTCTGTTTATGGAGAACATTGGGAAACATTTTGGAATTTGTTGCAACATTG
CCAGAAATTTATAATTATTTAATATTACCAGCAGCAATAGTTTGTGAAAATTCTTCGCAA
CGACTAAATGGAGATGCATTGATGGATTTGGCTCAAAAATGCTACTGTCGATGTTTGAAA
ATTAATAAACAAGATGAATTTGTGTGGTTTGATTATGTGGCTAACTATTACAAACGTTCA
CTTAGAATGAAGAGTGACAATGATAATAAAATGAAATTTCTTAAATTCGCATACAATGGG
GCAAAGCATTTGGTCAAACTGGCACCATCCAAATGGCAAAACTGGAACCTATTAGGAATA
ATTTGTACAACAAACGAAATAAACGATTCTGCTTTAGGCCAACATTGCTTTATTAAAGCA
ATAAATTTGGATAAAAAAACATTTACAAGTTGGTCAAATCTAGGGGTGTTTTATTTGAAG
CATGGTGAAATAAAGCTAGCAAATAAAGCATTTAGTCGTGCACAACAATCAGACACATCA
TTTTTAAATGCTTGGATTGGCCAAGCTTTGATTGCAGAACTAATTGGAGATAAAGATGAA
GCTATGGATTTGTTTCGACATTGCACTCAACTAGGTTTTCATCATGAATCATCAATCGGA
TATCCCAATTATGTATGTTCGATTCTCAATGAACCAAATTATGCAAGCATACCAAAATAT
AAATATGCGATTGATGCGATGAACGCAATTCCATTAGCACTAGATAACATACAATGGCAC
TGTATGTATGAACAAGATTTGACATTTGAAGCTCTTTCGTACGTAGGTTATCTGAGTAAT
TGTCAGAAGCTATTCAAACAAGCTTGTATAGCTTATGAAAAAGCATTGAAATTGGCGAGA
AGTGATGTTCAGAGAGATAAATGTTTAACTGATTTAGGATTTTGCTATTTGAGAGCAAAT
GAAAACGAAAAAGCTTCAAAAGCTTTTAGTGACATTAAAGAAGCATCATTTTTATCAACG
GTTGGACTTGCTTTGGCTTATTATAAAGATGCAAATTATCAAGATTGTTATGAGACATAT
CAAAAAGCAATAGAATGGCTTGCAACGAATGATGAAGAAAAATCAACTGTTCTAGTAGCG
ATGGCTTCTATGATTTATGCTTTTCAAGGAGTGGATGATGCTAAAATGGTTCTTTTTCAA
TGTATTCAATTGAAACCCATATCTGTTGAGGGACTTTTGTCTCTATGTGCAATCAGTTTA
TTAAAAAAAGACAAACAATTGAGCGAATTAGTCATAAAAGAATTGAAAAATTATGAGTAC
GATGAGAATTATGGACATCATGTATCATTTATGGTTTCACAATATTACATCAAATACAGC
ACAAAAGCTGAAGCTATAGTCTATATTTCATCGCGAATTCATGAATTTCCTGATCGAGCA
CCATTACGAAAACTTCTTGCAGTTGTACTATTAGAAACATACAAAGACAATAAGGTTTTG
ATGAGAGTAGCAAGTAAAATGGCCCAAAGTGCTCTGTCGATTCGTATTAAAAATCGTAAT
GTTTTATTATCGGAAGAAGCTGCTGAATTGTTAGCACTTTCAAGCATGACTATTGAGTGT
TTTGATGCACAGTCGGCAAAAATATTTGCACAAAAAGCTGTTCACACTTGTCCACATTAT
TGGAAAATTTTGAAAATACTTTGA

>g7169.t1 Gene=g7169 Length=1227
MSSKEVKNLLKEAREAIKNKEFQLAIKKCKEALTLDKQNGMTYILLGAAYTESDKLEAVK
CLRKAMDISSDYKLLALQGLSNCVSPKELPDVLEELLSLTPEKYADYYFKLNNLVMNEQI
LDHTKIITIFCAEIKNENERKFLALKYLLNIFMKNRELAFEKFSDEFLECLEVGIKDKNH
VYHVDIYQSYFKVLHQKQRFIELVKAAEEMVEMYPSSVIPLEWICKMYIENENNQSFQIN
ECLKSNFGIYVERLLEINPNSVLGLSASALIKFSIGDMASSRDILLKINQLQPNWSTCLK
KLAITHQKLRAYLLAELVYRKLKNVDLELAEMLIEQMIEGKVKEGIILCEKMMKNEPKAL
ELIAKGNIYLGSFSEAESFMENNKLLKATAHRIKGEYELAIETLKDIENHDAFLEIGRNL
FELQKYEESLVNILKATKLDPNNSECFYWLGKIYMISNDEHRSQKCLEKCLHLNAQNEKA
ITILSSIYRKNKEWDNNLQILENSVQSVSGVYQKTAFFQLGLHHLAQQSYDNAITAFRNV
LKYDKNSVECWEALADSYLARGSFNSALNVFQKSVELNPNNHYAKLQIAKIKYTLQQYQE
SIADYEELLKIIPDYLPALYGIAESHFGRACYLHENHRSGRARDHCQSTLSYLEQAIKLE
PSFLCLWRTLGNILEFVATLPEIYNYLILPAAIVCENSSQRLNGDALMDLAQKCYCRCLK
INKQDEFVWFDYVANYYKRSLRMKSDNDNKMKFLKFAYNGAKHLVKLAPSKWQNWNLLGI
ICTTNEINDSALGQHCFIKAINLDKKTFTSWSNLGVFYLKHGEIKLANKAFSRAQQSDTS
FLNAWIGQALIAELIGDKDEAMDLFRHCTQLGFHHESSIGYPNYVCSILNEPNYASIPKY
KYAIDAMNAIPLALDNIQWHCMYEQDLTFEALSYVGYLSNCQKLFKQACIAYEKALKLAR
SDVQRDKCLTDLGFCYLRANENEKASKAFSDIKEASFLSTVGLALAYYKDANYQDCYETY
QKAIEWLATNDEEKSTVLVAMASMIYAFQGVDDAKMVLFQCIQLKPISVEGLLSLCAISL
LKKDKQLSELVIKELKNYEYDENYGHHVSFMVSQYYIKYSTKAEAIVYISSRIHEFPDRA
PLRKLLAVVLLETYKDNKVLMRVASKMAQSALSIRIKNRNVLLSEEAAELLALSSMTIEC
FDAQSAKIFAQKAVHTCPHYWKILKIL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
27 g7169.t1 Coils Coil Coil 3 23 -
26 g7169.t1 Coils Coil Coil 588 608 -
21 g7169.t1 Gene3D G3DSA:1.25.40.10 - 1 238 1.2E-10
24 g7169.t1 Gene3D G3DSA:1.25.40.10 - 240 380 1.3E-6
25 g7169.t1 Gene3D G3DSA:1.25.40.10 - 381 513 6.4E-17
20 g7169.t1 Gene3D G3DSA:1.25.40.10 - 514 622 2.1E-20
23 g7169.t1 Gene3D G3DSA:1.25.40.10 - 624 921 3.8E-20
22 g7169.t1 Gene3D G3DSA:1.25.40.10 - 928 1131 5.3E-10
3 g7169.t1 PANTHER PTHR15704 SUPERKILLER 3 PROTEIN-RELATED 3 1224 9.2E-196
4 g7169.t1 PANTHER PTHR15704:SF7 TETRATRICOPEPTIDE REPEAT PROTEIN 37 3 1224 9.2E-196
2 g7169.t1 Pfam PF13414 TPR repeat 417 455 1.2E-6
1 g7169.t1 Pfam PF14559 Tetratricopeptide repeat 525 587 1.9E-7
40 g7169.t1 ProSiteProfiles PS50293 TPR repeat region circular profile. 1 72 8.25
32 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 6 39 5.723
37 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 40 72 6.077
35 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 410 443 9.558
42 g7169.t1 ProSiteProfiles PS50293 TPR repeat region circular profile. 410 615 37.287
33 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 444 477 7.287
30 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 514 547 9.558
28 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 548 581 12.184
38 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 582 615 7.316
34 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 808 841 8.26
41 g7169.t1 ProSiteProfiles PS50293 TPR repeat region circular profile. 808 875 11.315
29 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 842 875 5.428
36 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 929 962 5.9
31 g7169.t1 ProSiteProfiles PS50005 TPR repeat profile. 997 1030 6.431
39 g7169.t1 ProSiteProfiles PS50293 TPR repeat region circular profile. 997 1030 6.633
12 g7169.t1 SMART SM00028 tpr_5 6 39 22.0
17 g7169.t1 SMART SM00028 tpr_5 40 72 82.0
15 g7169.t1 SMART SM00028 tpr_5 410 443 0.071
14 g7169.t1 SMART SM00028 tpr_5 444 477 27.0
10 g7169.t1 SMART SM00028 tpr_5 514 547 10.0
8 g7169.t1 SMART SM00028 tpr_5 548 581 0.0023
19 g7169.t1 SMART SM00028 tpr_5 582 615 0.7
18 g7169.t1 SMART SM00028 tpr_5 623 656 130.0
13 g7169.t1 SMART SM00028 tpr_5 808 841 13.0
9 g7169.t1 SMART SM00028 tpr_5 842 875 81.0
16 g7169.t1 SMART SM00028 tpr_5 929 962 2.6
11 g7169.t1 SMART SM00028 tpr_5 997 1030 35.0
7 g7169.t1 SUPERFAMILY SSF48452 TPR-like 16 321 1.02E-7
6 g7169.t1 SUPERFAMILY SSF48452 TPR-like 394 617 1.32E-27
5 g7169.t1 SUPERFAMILY SSF48452 TPR-like 752 1084 1.24E-20

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:0006401 RNA catabolic process BP
GO:0005515 protein binding MF
GO:0055087 Ski complex CC

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