General information for g11886.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ras-responsive element-binding protein 1.
Parent gene
- The parent gene g11886 is located on chr_1: 18964035..18965968 (- 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 | g11886 | g11886.t1 | TTS | g11886.t1 | 18964005 | 18964005 |
| chr_1 | g11886 | g11886.t1 | isoform | g11886.t1 | 18964035 | 18965968 |
| chr_1 | g11886 | g11886.t1 | exon | g11886.t1.exon1 | 18964035 | 18964509 |
| chr_1 | g11886 | g11886.t1 | cds | g11886.t1.CDS1 | 18964035 | 18964509 |
| chr_1 | g11886 | g11886.t1 | exon | g11886.t1.exon2 | 18964573 | 18965400 |
| chr_1 | g11886 | g11886.t1 | cds | g11886.t1.CDS2 | 18964573 | 18965400 |
| chr_1 | g11886 | g11886.t1 | exon | g11886.t1.exon3 | 18965757 | 18965968 |
| chr_1 | g11886 | g11886.t1 | cds | g11886.t1.CDS3 | 18965757 | 18965968 |
| chr_1 | g11886 | g11886.t1 | TSS | g11886.t1 | NA | NA |
Sequences
>g11886.t1 Gene=g11886 Length=1515
ATGGGAAGCAATCATGTGAAGAATATGATGAATAAAGTTGCAGCTGCTGCAGTTGCTCAA
AATAATTCAGATGATGAAGAAGATGAAAAAGAGTCTGAAAAGGAACGTAAAAATGACAAC
AGCAATATTAAAGAAGAAGCAAATGATCTCGTATCGGTTTCGAAACTCATTGATAATGCC
ACCAATTCAATGATGTTTTCAAATTATTTTAGTCGTCCTGAGCCACCAATGACAGATCAT
AGCGATGAAGAGGGATTAGTTGCTTCAGGAAGTGCTTCAGAAAGCAACAATTCAGGAACA
GATGATCCAAATCCATCAAATAATAAAGAAAAGAAAAAATCAGCTTATAGTCTTGCACCA
AATCGTGTTTCATGTCCATACTGTCAACGTAAATTTCCATGGTCAAGTTCACTTCGTCGT
CATATTCTCACACACACAGGTCAAAAACCATTTAAATGCTCTCAATGTCCATTACTTTTT
ACTACCAAGAGCAATTGTGATCGTCATTTGTTGAGAAAGCATGGAAACTGTGAAGATGCC
GTTTCTCTACAACTTCCAATTGATGAAATGCCAGAGCCAGTTAAAGAACCAGTTCGACCA
TTGAATAACAATAGCAAGTCATCAGAAAAACGTGAAGAATTGCCGAAAGTTGAACTACCA
CAAATTCCATTTACTATTCCATCAACTCTTCAATTGCCAACTCCTGTAAAAACAGAAAAT
TCATCTTCTCCAGCTATGCAACTTCCTACACCAGTCATGTCAACTGATTTGCCATTTAAA
TGTCATCTCTGTGATGGCTCATTCACAGACCGAGTTGGTTGCCTAGAACATATCAGAAGT
GTTCATCCTCAAGATTTTGCAGTTTTAATGCAAAAAGTTCAACTCGAATCAGAAGAAGCT
GTAAATGGCTCACCAGATGACGATGAAAATGATAGAAAAGGAAAATATCCAGATTATGCT
AATCGTAAAGTAATCTGTGCATTTTGTTTGCGACGATTTTGGTCAACAGAAGACTTACGT
CGTCACATGAGAACCCACAGTGGCGAACGTCCTTTCAATTGTGATATATGTTTTCGAAAA
TTCACATTGAAGCACAGTATGTTGCGTCATCGCAAAAAACACTCAAATGCACCGAATCAG
ATGAGTTTTCAAAAACCTGAAGCTGGTGATGCAACTGGAAATGGATCAAGTATCAACAAT
AGCGCTTCAGACATGTCTGATGACGAATCAACAACTCTTGCTATCATCAATAATAAAAAA
CTCATGGAAATGATGACTCCAACGACGCAAAATAAAAATGAACAGGATTTTATGTCACGC
ATGACTAATCCAATTAACAAAGAACTGTTTATGAAATTTCAAGAGAAAATTTTCAATATG
CAACAACAATTGACTGGCACTGTAGGTTCGAATTTGTTAGGAAATTTACTCGGAATCAGT
GACCAAGGTGTGTTAAATAGAATGATTAATGCTTCAGCTGATGAAGCTGCAAAAATGTTG
GGCGTTGAAAAATAA
>g11886.t1 Gene=g11886 Length=504
MGSNHVKNMMNKVAAAAVAQNNSDDEEDEKESEKERKNDNSNIKEEANDLVSVSKLIDNA
TNSMMFSNYFSRPEPPMTDHSDEEGLVASGSASESNNSGTDDPNPSNNKEKKKSAYSLAP
NRVSCPYCQRKFPWSSSLRRHILTHTGQKPFKCSQCPLLFTTKSNCDRHLLRKHGNCEDA
VSLQLPIDEMPEPVKEPVRPLNNNSKSSEKREELPKVELPQIPFTIPSTLQLPTPVKTEN
SSSPAMQLPTPVMSTDLPFKCHLCDGSFTDRVGCLEHIRSVHPQDFAVLMQKVQLESEEA
VNGSPDDDENDRKGKYPDYANRKVICAFCLRRFWSTEDLRRHMRTHSGERPFNCDICFRK
FTLKHSMLRHRKKHSNAPNQMSFQKPEAGDATGNGSSINNSASDMSDDESTTLAIINNKK
LMEMMTPTTQNKNEQDFMSRMTNPINKELFMKFQEKIFNMQQQLTGTVGSNLLGNLLGIS
DQGVLNRMINASADEAAKMLGVEK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g11886.t1 | Coils | Coil | Coil | 16 | 36 | - |
| 7 | g11886.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 110 | 147 | 1.3E-8 |
| 6 | g11886.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 148 | 174 | 1.5E-6 |
| 8 | g11886.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 250 | 350 | 3.2E-11 |
| 9 | g11886.t1 | Gene3D | G3DSA:3.30.160.60 | Classic Zinc Finger | 351 | 380 | 2.2E-6 |
| 27 | g11886.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 51 | - |
| 25 | g11886.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 30 | 44 | - |
| 23 | g11886.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 75 | 115 | - |
| 21 | g11886.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 88 | 114 | - |
| 26 | g11886.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 190 | 220 | - |
| 24 | g11886.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 369 | 392 | - |
| 22 | g11886.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 377 | 392 | - |
| 3 | g11886.t1 | PANTHER | PTHR46451 | RAS-RESPONSIVE ELEMENT-BINDING PROTEIN 1 | 9 | 195 | 2.0E-130 |
| 2 | g11886.t1 | PANTHER | PTHR46451 | RAS-RESPONSIVE ELEMENT-BINDING PROTEIN 1 | 252 | 503 | 2.0E-130 |
| 1 | g11886.t1 | Pfam | PF00096 | Zinc finger, C2H2 type | 124 | 145 | 0.0011 |
| 12 | g11886.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 125 | 145 | - |
| 15 | g11886.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 153 | 174 | - |
| 14 | g11886.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 261 | 282 | - |
| 13 | g11886.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 326 | 346 | - |
| 11 | g11886.t1 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 354 | 374 | - |
| 28 | g11886.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 123 | 150 | 13.588 |
| 30 | g11886.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 259 | 287 | 9.058 |
| 31 | g11886.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 324 | 351 | 13.734 |
| 29 | g11886.t1 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 352 | 379 | 10.325 |
| 19 | g11886.t1 | SMART | SM00355 | c2h2final6 | 123 | 145 | 0.0014 |
| 20 | g11886.t1 | SMART | SM00355 | c2h2final6 | 151 | 174 | 0.13 |
| 18 | g11886.t1 | SMART | SM00355 | c2h2final6 | 259 | 282 | 0.024 |
| 17 | g11886.t1 | SMART | SM00355 | c2h2final6 | 324 | 346 | 0.065 |
| 16 | g11886.t1 | SMART | SM00355 | c2h2final6 | 352 | 374 | 0.57 |
| 5 | g11886.t1 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 124 | 170 | 4.03E-13 |
| 4 | g11886.t1 | SUPERFAMILY | SSF57667 | beta-beta-alpha zinc fingers | 324 | 374 | 1.79E-11 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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