General information for g10318.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sterol regulatory element-binding protein 1.
Parent gene
- The parent gene g10318 is located on chr_1: 8907293..8912127 (+ 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_1 | g10318 | g10318.t1 | TSS | g10318.t1 | 8903369 | 8903369 |
| chr_1 | g10318 | g10318.t1 | isoform | g10318.t1 | 8903439 | 8907293 |
| chr_1 | g10318 | g10318.t1 | exon | g10318.t1.exon1 | 8903439 | 8903511 |
| chr_1 | g10318 | g10318.t1 | cds | g10318.t1.CDS1 | 8903439 | 8903511 |
| chr_1 | g10318 | g10318.t1 | exon | g10318.t1.exon2 | 8903586 | 8905099 |
| chr_1 | g10318 | g10318.t1 | cds | g10318.t1.CDS2 | 8903586 | 8905099 |
| chr_1 | g10318 | g10318.t1 | exon | g10318.t1.exon3 | 8905160 | 8906286 |
| chr_1 | g10318 | g10318.t1 | cds | g10318.t1.CDS3 | 8905160 | 8906286 |
| chr_1 | g10318 | g10318.t1 | exon | g10318.t1.exon4 | 8906351 | 8906471 |
| chr_1 | g10318 | g10318.t1 | cds | g10318.t1.CDS4 | 8906351 | 8906471 |
| chr_1 | g10318 | g10318.t1 | exon | g10318.t1.exon5 | 8906713 | 8906886 |
| chr_1 | g10318 | g10318.t1 | cds | g10318.t1.CDS5 | 8906713 | 8906886 |
| chr_1 | g10318 | g10318.t1 | exon | g10318.t1.exon6 | 8906943 | 8907293 |
| chr_1 | g10318 | g10318.t1 | cds | g10318.t1.CDS6 | 8906943 | 8907293 |
| chr_1 | g10318 | g10318.t1 | TTS | g10318.t1 | 8907534 | 8907534 |
Sequences
>g10318.t1 Gene=g10318 Length=3360
ATGGATGATTGGGACCAATTCCAGCATCAAATGGATCTTGATATCCCAGAGAACCTAGAT
CTTAACGAGATCTACGCTCTCAATGAGGAAAAACTGATGAATATAATGGATGAAAATTTT
CTTAGTCAACTTAGTTGGGATGAAAATAATCAAGGAGGAGGTGTTAATGTATCGCAATAT
GAATCAGCAAGTCAAAATCATAGTGAAGCAAGCAATAGCAGTACTGATGGAATTGCAGCA
GATTCTCTTCAAACAACTTTTAGTGGAATTAACAAACTAAAATCAGAACCTGTAGTTGTT
CAACAAATTGTGAGGCAACAAACTGCTAAAGTATCACAATATCAACCAATAAAGCCGGCA
ACAACAACAGGAATCAAACAAGGTCAAGGTCAAATGCAAAAAATAACACAGCAGCAACCA
ATATCTCCGCCTGTTCAACCAATAGCATCATCAGTGATTCTTACTCAAAATCGATCAAAT
ATTATCACTACATCTCCGTCAGCTATCTTAGTTCAAAATCCGAATTTTTACAATTTAAAG
ACTATTGCACCATCGAATAATACGACAACTATTATTCAACCAAAAACTAAGCAACAGAAA
ACGACAACAATTCAGCCCGCACCAACAGCTTTGCCTGTTATGCAATTAATTCAAACAACA
ACGGCCGGAGATAAACAACCGGTACTTTTACAAACAAATCCAACCGTCATGTATACAACT
ACTTCAGCTAATGATGTACAAAATATACAACTTGTTAATGCTCCAATTCTTACAACAGTT
CCTCTTGTTCTTGATAGTGAAAATAAATTCACCATTGGAACAGCTCCGCCAAAAGTAAAA
GAAGTGAAGAGATCAGCGCATAATGCTATAGAACGCAGATATAGAACCTCCATTAATTCA
TGCATTATCGAATTGAAAAACATTGTTGTTGGTGTTGATGCAAAATTACATAAATCAGCA
ATTTTGAGAAAAGCAATTGAGCACATACGCTATTTACAAAATCAAAACAACAAGCTTAAA
GCAGAGAATATGTATTTGAAGAATATAATGACAACTGAGAGTAAGCATGGATTGAAGGAT
CTTTTGATTAGTCAACAAAATGCAAATGCTATGACTCCGCCTCGTTCAGACGAATCCAAT
CCATCATTATCTCCAGCACATTCCGATTCTTCAATGCCTTCATCACCATTTGAAGATTCT
ATTAAAGATGAGTCAGATGAGAGCAGTGATGTTATGACTTCTGTTCGAGGCATGACATCT
CATTCGCGCTTGACTTTGTGCATGTTTATGCTTGCTGTTTTTATTGTGAATCCATTCAGT
AAAATGCTTAAAATTAATAATGAAGATTCTTATGATGTTGATGATTCAACTGGTCGTCGT
CGTAATATTCTCGGTTTGGATGATGACATTGGATTATCGTTATGGAATTTTTCATCAACA
TTTTTCGTTTGGATGATCAATATCATGTTTCTTATTGGATGTCTTGTTAAAATGCTTGTT
TATGGAGATCCTGTTTTAAAACATCAATCAAATGAAAGTATCAAATATTGGAAACATAAA
AAGCAATCTGATTTGGAATTTGAGAGAGGAAATGGAAAAGAATCTTATGCTGAGCTTATT
AGATGTTTACAATGTTATGGTCTTTCTTTACCTATAACAAAGTTTGAAAGATTGTCTGCA
ACAACTTGGCAATTCATAAGAATGATTTTACACAATTTTTGGATAGGAAGATTTTTGTCA
CGTCGAAATGGGGGACTTTTTAAATCAGAGGCTAAACGTGCTGAAGCAATGAGTTCAGCT
AAAGAATTGTCGCTCGTATTTCATCGTTTGAATCAACTTAATTTGTCTGCAAACATGAAG
GATTCTAATGGAGTAATGTTATCGTTATATGCAATTAATATGGCCGAAGCTGCTGGTAGC
TTAATGGAACCTGAGTTGCTTTTAGAAATATACCTTGTTACTGCACTTCGAATTAAGCGA
AGCTATCCAAAAATTTTGCAATTCTTCTGTCGTTATTATTTGAGCAAAGCACGACAAACA
AGTCTCAAGTGCAGTCACATCCCATCAAAATATCAATGGGCATTTACTAATTATGGCTAT
AAATTTTTAGTCAATCACAAATTTCGCTATGAAAACCAGTCATCAAGCAATACTATCTTT
AGTAAACTCGGAAATAAAGCAGATCCTTTAGCTTATGGATTAAAAGAATATCGTGAACAT
CTTCTTGAAAAAGCTATCCATTGTTTAGTTGGTTCAGGAACTTATAGTAAGAATGAATTA
TCAAAAGAATCAAATGATAAACGCCGTACTAAAGAAAGCAAGAAACAAATGACAGAATCA
GGTGAAACAAGTCAAAACTCTTCTGCTGATGAGGGAAGTGATGGAAATGAAAACGAGAGA
TTTATTAAAGGATCGCAAATCAGTGATGTTCTTACTTTCACGAAATTAGTGACTCATAGC
ATGTCCGCAGATAAACCAATTCAGTTTGATGATAAAATATCGATGAGAGATGGACAAACA
GAATGGTGTGATGATAGATTAGCTCAATGGTGGAGTAGTTTATTAACTGTTGCTACTTAT
TGGTTACTTGGTGAAGACAAGATCGCTGAAAAATACTATCATTTCATTGAAAAATGGCCT
GCTGACTTTATTGGACTTGAAAATAGTTTGCCAAAAGCACTTTTTGCAGCCTATAACGCT
CGAAAAGGATTAATGCAACAAAACACTTCCATCAACATTAAACAAATTTATCGTGATTGC
AACACAGCAAGTCACTGTTTAAAGGAAGCATTGACTACATCAAAATGTAAAGGCCCATTA
CGTGGAAAAATTTTGTATGCAGAGCTTTTGACAATCGATTGGATAATGGAAACTCGTTTA
TCATTATGGGAACATGAGTATAGAATGGAAAATGATGATTACTATAACTTTGTTCCGGTC
GAATCATCAATTTTAACTGGATTCCAAGATGATTTGAATCTGTTACGTCGTTTAACAGTT
GATATACCGAATGCTCAACCACGTATTTATTTATATGAGGCTGTTCTTCGATTCATGTCA
GGAGCTAACACAATAAAAACACAATTTTTGCTCGATAGAAGCCTTCGTCAACGAAATAAC
AAGCAGAGTATAATTTGTGGTTCAAAAGATCGATCACATTTCGAGGGTGATAAAGAGAGA
GCATCTGCATTAACTTTAGCTGTAAAACATTTGCCACAAGCATGTTTTGGTTTACCTGGA
GAAAAGGCTGGATTGCTAGAAGAGGCAGTCAGATTAAATGAACGTTTTGGAGACAAGAAG
AAATTGAAAGAATGCTATCAGCTTATGCGAACTTTAGGAAACACTTCTGTTACGACTTAA
>g10318.t1 Gene=g10318 Length=1119
MDDWDQFQHQMDLDIPENLDLNEIYALNEEKLMNIMDENFLSQLSWDENNQGGGVNVSQY
ESASQNHSEASNSSTDGIAADSLQTTFSGINKLKSEPVVVQQIVRQQTAKVSQYQPIKPA
TTTGIKQGQGQMQKITQQQPISPPVQPIASSVILTQNRSNIITTSPSAILVQNPNFYNLK
TIAPSNNTTTIIQPKTKQQKTTTIQPAPTALPVMQLIQTTTAGDKQPVLLQTNPTVMYTT
TSANDVQNIQLVNAPILTTVPLVLDSENKFTIGTAPPKVKEVKRSAHNAIERRYRTSINS
CIIELKNIVVGVDAKLHKSAILRKAIEHIRYLQNQNNKLKAENMYLKNIMTTESKHGLKD
LLISQQNANAMTPPRSDESNPSLSPAHSDSSMPSSPFEDSIKDESDESSDVMTSVRGMTS
HSRLTLCMFMLAVFIVNPFSKMLKINNEDSYDVDDSTGRRRNILGLDDDIGLSLWNFSST
FFVWMINIMFLIGCLVKMLVYGDPVLKHQSNESIKYWKHKKQSDLEFERGNGKESYAELI
RCLQCYGLSLPITKFERLSATTWQFIRMILHNFWIGRFLSRRNGGLFKSEAKRAEAMSSA
KELSLVFHRLNQLNLSANMKDSNGVMLSLYAINMAEAAGSLMEPELLLEIYLVTALRIKR
SYPKILQFFCRYYLSKARQTSLKCSHIPSKYQWAFTNYGYKFLVNHKFRYENQSSSNTIF
SKLGNKADPLAYGLKEYREHLLEKAIHCLVGSGTYSKNELSKESNDKRRTKESKKQMTES
GETSQNSSADEGSDGNENERFIKGSQISDVLTFTKLVTHSMSADKPIQFDDKISMRDGQT
EWCDDRLAQWWSSLLTVATYWLLGEDKIAEKYYHFIEKWPADFIGLENSLPKALFAAYNA
RKGLMQQNTSINIKQIYRDCNTASHCLKEALTTSKCKGPLRGKILYAELLTIDWIMETRL
SLWEHEYRMENDDYYNFVPVESSILTGFQDDLNLLRRLTVDIPNAQPRIYLYEAVLRFMS
GANTIKTQFLLDRSLRQRNNKQSIICGSKDRSHFEGDKERASALTLAVKHLPQACFGLPG
EKAGLLEEAVRLNERFGDKKKLKECYQLMRTLGNTSVTT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g10318.t1 | CDD | cd11394 | bHLHzip_SREBP | 278 | 347 | 2.6248E-35 |
| 6 | g10318.t1 | Coils | Coil | Coil | 322 | 342 | - |
| 5 | g10318.t1 | Gene3D | G3DSA:4.10.280.10 | HLH | 278 | 357 | 4.5E-23 |
| 15 | g10318.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 370 | 398 | - |
| 17 | g10318.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 370 | 414 | - |
| 16 | g10318.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 759 | 797 | - |
| 14 | g10318.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 760 | 778 | - |
| 2 | g10318.t1 | PANTHER | PTHR46062:SF1 | LP12374P | 24 | 1118 | 5.1E-283 |
| 3 | g10318.t1 | PANTHER | PTHR46062 | STEROL REGULATORY ELEMENT-BINDING PROTEIN | 24 | 1118 | 5.1E-283 |
| 1 | g10318.t1 | Pfam | PF00010 | Helix-loop-helix DNA-binding domain | 283 | 333 | 1.2E-16 |
| 8 | g10318.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 421 | - |
| 10 | g10318.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 422 | 440 | - |
| 9 | g10318.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 441 | 480 | - |
| 11 | g10318.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 481 | 500 | - |
| 7 | g10318.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 501 | 1119 | - |
| 18 | g10318.t1 | ProSiteProfiles | PS50888 | Myc-type, basic helix-loop-helix (bHLH) domain profile. | 282 | 332 | 14.888 |
| 13 | g10318.t1 | SMART | SM00353 | finulus | 288 | 338 | 3.6E-15 |
| 4 | g10318.t1 | SUPERFAMILY | SSF47459 | HLH, helix-loop-helix DNA-binding domain | 282 | 350 | 2.09E-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:0046983 | protein dimerization activity | MF |
KEGG
Orthology
- This transcript has been annotated with K07197 (sterol regulatory element-binding transcription factor 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.
