General information for g6425.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Neuroligin-4, X-linked.
Parent gene
- The parent gene g6425 is located on chr_2: 16954953..16981690 (- 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_2 | g6425 | g6425.t1 | isoform | g6425.t1 | 16954953 | 16981690 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon1 | 16954953 | 16955833 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS1 | 16954953 | 16955833 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon2 | 16956215 | 16956343 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS2 | 16956215 | 16956343 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon3 | 16956408 | 16956554 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS3 | 16956408 | 16956554 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon4 | 16962337 | 16963049 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS4 | 16962337 | 16963049 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon5 | 16963134 | 16963276 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS5 | 16963134 | 16963276 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon6 | 16964297 | 16964485 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS6 | 16964297 | 16964485 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon7 | 16964636 | 16964831 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS7 | 16964636 | 16964831 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon8 | 16964958 | 16965062 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS8 | 16964958 | 16965062 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon9 | 16966270 | 16966465 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS9 | 16966270 | 16966465 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon10 | 16967261 | 16967449 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS10 | 16967261 | 16967449 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon11 | 16968034 | 16968192 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS11 | 16968034 | 16968192 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon12 | 16978546 | 16978766 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS12 | 16978546 | 16978766 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon13 | 16980149 | 16980173 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS13 | 16980149 | 16980173 |
| chr_2 | g6425 | g6425.t1 | exon | g6425.t1.exon14 | 16980580 | 16981690 |
| chr_2 | g6425 | g6425.t1 | cds | g6425.t1.CDS14 | 16980580 | 16981690 |
| chr_2 | g6425 | g6425.t1 | TSS | g6425.t1 | NA | NA |
| chr_2 | g6425 | g6425.t1 | TTS | g6425.t1 | NA | NA |
Sequences
>g6425.t1 Gene=g6425 Length=4404
ATGCAAATTAAAACACAATTAAGCGACTGTGCCAGTGAATTTAGTGAAAATGTGGTGCAA
AAAATACTTGAGGCATCTCACTCTCGTAAAAATGAAATGCACCATGAATGGATGTATATC
GAAGTGTCCTCGTATTATAAAATAGTGCCGCATGGGAGGCTTCATTATCATCATCACCGC
AGCCATTATCGTGGTCGTCAGTGGTCGTTGTGTTCAATAGATAATTTCAAATTAAAATGC
TCGTTCCTCATCAACTGTATTTTACTAAATTACTACTATGAACTCTGTTGGCCATTATTT
TGGCTCATCTGGAAGTCACCTGTAGCAAATTATTGTTGTCAACAGACAACTGGGATGGCA
ATGACAACACATAAAAATTTAATGATCGATAAAATTTTTCTTCAGAATTTCAAGACAGCG
GCGTCATCATTATTACTAAAACTAGTGAAAACGTCATCATCGTGTTTTTATACAAAGTTC
TTTTACGAGCAGCAACAGCAGCAGCAGCATACACCAAATAAAATTCATTTTAGTTCGCAT
AGCGTAAATACATTTTGTGATTTGAGTACAAATAGTGATGAATTATTAGTGACGATTATT
CATGGAATTGAGCATTATCAACGCTGCTTAGTAATAAAATCATCACGACATGGCTCGAAA
ACATTGAACTTTTTCTACGGAATTTTATTGATACAACGTCATCTTCTGATATGTAACAAT
TACGAATTTAGTAATGAATATAGACGTGAAGATAATAATAACAATAATGTAGAGACAACA
AATGATCAAATTTTAATAATTCAACACTCGCTTGCACATAATCAAATGCCAGTCGATGAC
AATTCGACAGTTTCAACTAGCAACCACAAACTGAAAAATCATCATCATAGACAAAATAAT
GCCTCAAAGTTCTCAAATTCGTGTCATCGTTTCAGTGATGGCAATATCTTCAATGCGCTT
TTATTCTTTATTATACTATGCATTCCATTGCTGACAAGCGCCCACACATTGAAATACAAT
CCAAATGTGGTAAAAACAAAATATGGACCGCTACGTGGTATCATATTGAGACAGAACCCG
ACTGTAGAAGGATATTTGGGTGTGCCCTATGCTACTCCACCATTGGGCAGTCTAAGATAC
ATGCCCCCAGTGACACCTTCAACATGGAAGAATACTCGCCTTGCCGATCATTTTTCACCA
GTCTGTCCACAAACAGTGCCCGTAACATCGGATACCGGCATGGAAGCTTTACTGGAGATG
CCGAGAGGTCGTTTAGCTCAATTGCGTCGAATGAAACCACTTTTATCAAACTATTCTGAG
GATTGTCTATATCTTAACATGTATGTTCCACGTGAAGATGAAACAGGTGCCTCAATTGAT
AAGCCAATGGCAACGTTAGTCTACATACATGGTGAATCGTACGAATGGAATTCGGGAAAT
TTATATGATGGAACAGTACTCGCTGCCCATAGCAACATAATTGTTGTTACAATAAATTTT
CGCTTAGGCATTCTTGGATTTTTAAAAACAGGCACAAAAGCATCATCTCAGGGAAATTTT
GGACTAATGGATCTTGTAGCAGGTCTACATTGGTTGCGCGAAAATTTACCAGCTTTCAAT
GGCAATCCAAACTTAGTAACATTAATGGGACATGGCCATGGTGCAGCGCTTGCAAATATT
CTGATTGTTTCGCCTGTCGCGAGTGATTTGATACATCGAGCGATTCTGATAAGTGGCTGT
GCATTATCACCGTGGGCAATTCAACGCGATCCATTATCAATAAAGAAGAAGGTCGCAACT
GATACGGGTTGTCATGGAGATTTATTAGATGATGATATAGCGCCATGTTTACGAAAAAAG
TCCATATCAGAATTGTTGGCAATCAAACTGGATCCGCCCAGATTTCTGCCGGGATTTGCA
CCATTCGTTGATGGAACTGTTATTGTTAATCCCGCTATAACGCCCATCATGCCAATTACG
ATACCGATGGGCGCAGCAATTGCTGGTTCTGCTGGCATTGAATTAGCCGATTTTCCCACA
CGACAGCTGCTGTTTGCTGTGACATCTATAGAATCATATCTCGATTTTAGTGCCCAAGAC
TTAGAATTTGGTTTCAACGAAACACGAAGAGATCGTATATTACGAACGTATGTTAGGAAT
GCTTATCATTTTCATTTGAATGAAATTTTTTCGGCCTTAAAAAACGAGTACACATACTGG
GAACAACCGCCCAGAAATCAATTGGGTTCGAGAGATGCTGCCTTAGAATTGTTAAGTGAT
GGTCATACCGTTGCGCCACTTGTGCGTTTGGGTTATTTACACAGCTTGCGAGGTGGAAAG
TCGTATTTTATGCATTTTAAGCATCGCACGAATGAACGAGATTTTCCACAGCGATACGGA
ACAGTTCGTGGCGAAGATGTGCCTTTCTGCTTTGGACTTCCAATGACGCCGTTATTTCCA
TACAATTATACGCAGCAAGACATCCAAACAAGTAGAATTTTAATTCATTATTTGGCCAAT
TTCATACAAACAGGGAATCCCAATGGTGATGCGACACCAACTAATCGACACTCGATCGAA
TTGGATTCATTGAGGCGATTAGGAAGTGATAGCCACTTAATCGAATCATTACCCGCACCA
TTATCATTACATTCTTCTTCATCATCACCAACATCATCGATGTCTTCCCAAATAATACTT
CAGCAACAACATCAACAACAAAAAGAAATTCATGAAGAACTGCAACACCATCTAACATTA
AATACTAGTGTGATTTTTAGGAGTATCCAAAATGATAATAATAACAATAGTAGTCATAGT
ATCAATGATGATAATAGTGAATCAATGCAGCACCAGCAATCGGCATTCATTCATCACGCC
TTATCGCTCATGAACAATCGACATAGAAGATCATCTGCAGCAGTGAGCAGTAGTAGCTTC
AAAAAATTCATTGTCAAAAGAAATTTCCCAAACAATCAATTGACGACAAGTTTAGGCTCA
GACGAAGACGACAGCAATGAATTGGAATTGGATGGAATCGATGATGGAGAAAATGATGAT
GACGATTACATTGAGCGTGAAGAGGATGAGAAAACGAGTGGTCAGCAACAACAGAAGCAG
CAAAAGACTGGCAATCATGATCGACTGGACATCGATGACAATGAAAGTGATTTGGAAAAG
TCAATGAAGATGTATGTGCCATATTGGGATGCTTATGATACTGTAAATCAATTATTTCTT
GAGATGAATGTGAAGCCTGAAATTAAAAATCATTATCGCGGTCATAAATTATCGATGTGG
CTGAGCCTCATTCCACAAATTCATTCACCTGGCGAGTCGGATTTATCAATGCGACATCAT
CACTTCATTGAGGAAAATTCTCAATTTTACGACGGTAAAGTGCGATTACAAAAATTAGAA
CGTCCGACTGTCATTAAAATCAGTGCACCGTTAACAACAGTCACAACACCCAAACATAAG
ACTGAGAAAACACCATCACCTTTAATGCCATCAATGACAACTGAATGTCCATCAAATACT
ACAATCGTACCAACACTTGCTGCCACACGTCCCCAGAATCAAGATAATAATAACGGCAAC
AATAGCTTATTTAGACGCTTGACAAGCAGTACCCAATATCAGAGTTATGCAACGGCTCTT
ACTGTCACGATCGCTGTCGGATGTTTTTTATTGCTGCTCAATGTGTTCATTTTTGCTGCA
ATTTATTATCAACGAGAAAAACGAGCAACATATACTAAAAAGAAAGAAGAATTGACGGAT
GCTGAAAATCATCACTCGTCATCATCGCCGAGTCTTGAGCGATATCAACAAAAGGGAAGC
CGCAAGTCAAGTTTGCAGAGTGTATCAGGAACGACTTTTGGTGAATACAGCTGTTATGAT
GATAAGTTGCGGTGTAAAGAAAAGCGAGCTTTGGCTGATTTGTGTACAGTAGAATTGCCA
ATGCAAGAATACAAATATTCACCACCATGTGGAAGTACCAACAGTTTGCGTCGATCAATC
ACACCAGAAAACTATAGTGGCAATAGCAACAAGCATCCGACCATGATGGATTCATCAACA
CAAGACACTTACTCATTGCTACCCACATACGCTGCGCCACAAATTAATGACACAAATAAT
CTTGTAACATACCGCTCAGTGATGATTCCGAAAGCAGAATTATGTAATCAAGCAACACAA
GCAGATTCCCCGCCGCGATTGCACGATGCAAGCACAATTGTTGATGAAAACGATCAGGAA
CTAAGTCCTATACCCACTGATATACCACCACCACCACGTTCATCACTTCAGTCTGGTATC
TTGAGGCAAGGCAGCAGTAGCAACGCACCCACAACACCCGGAACCGCTAAAAAGCGTGTT
CAAATTCAAGAGATTTCTGTTTAA
>g6425.t1 Gene=g6425 Length=1467
MQIKTQLSDCASEFSENVVQKILEASHSRKNEMHHEWMYIEVSSYYKIVPHGRLHYHHHR
SHYRGRQWSLCSIDNFKLKCSFLINCILLNYYYELCWPLFWLIWKSPVANYCCQQTTGMA
MTTHKNLMIDKIFLQNFKTAASSLLLKLVKTSSSCFYTKFFYEQQQQQQHTPNKIHFSSH
SVNTFCDLSTNSDELLVTIIHGIEHYQRCLVIKSSRHGSKTLNFFYGILLIQRHLLICNN
YEFSNEYRREDNNNNNVETTNDQILIIQHSLAHNQMPVDDNSTVSTSNHKLKNHHHRQNN
ASKFSNSCHRFSDGNIFNALLFFIILCIPLLTSAHTLKYNPNVVKTKYGPLRGIILRQNP
TVEGYLGVPYATPPLGSLRYMPPVTPSTWKNTRLADHFSPVCPQTVPVTSDTGMEALLEM
PRGRLAQLRRMKPLLSNYSEDCLYLNMYVPREDETGASIDKPMATLVYIHGESYEWNSGN
LYDGTVLAAHSNIIVVTINFRLGILGFLKTGTKASSQGNFGLMDLVAGLHWLRENLPAFN
GNPNLVTLMGHGHGAALANILIVSPVASDLIHRAILISGCALSPWAIQRDPLSIKKKVAT
DTGCHGDLLDDDIAPCLRKKSISELLAIKLDPPRFLPGFAPFVDGTVIVNPAITPIMPIT
IPMGAAIAGSAGIELADFPTRQLLFAVTSIESYLDFSAQDLEFGFNETRRDRILRTYVRN
AYHFHLNEIFSALKNEYTYWEQPPRNQLGSRDAALELLSDGHTVAPLVRLGYLHSLRGGK
SYFMHFKHRTNERDFPQRYGTVRGEDVPFCFGLPMTPLFPYNYTQQDIQTSRILIHYLAN
FIQTGNPNGDATPTNRHSIELDSLRRLGSDSHLIESLPAPLSLHSSSSSPTSSMSSQIIL
QQQHQQQKEIHEELQHHLTLNTSVIFRSIQNDNNNNSSHSINDDNSESMQHQQSAFIHHA
LSLMNNRHRRSSAAVSSSSFKKFIVKRNFPNNQLTTSLGSDEDDSNELELDGIDDGENDD
DDYIEREEDEKTSGQQQQKQQKTGNHDRLDIDDNESDLEKSMKMYVPYWDAYDTVNQLFL
EMNVKPEIKNHYRGHKLSMWLSLIPQIHSPGESDLSMRHHHFIEENSQFYDGKVRLQKLE
RPTVIKISAPLTTVTTPKHKTEKTPSPLMPSMTTECPSNTTIVPTLAATRPQNQDNNNGN
NSLFRRLTSSTQYQSYATALTVTIAVGCFLLLLNVFIFAAIYYQREKRATYTKKKEELTD
AENHHSSSSPSLERYQQKGSRKSSLQSVSGTTFGEYSCYDDKLRCKEKRALADLCTVELP
MQEYKYSPPCGSTNSLRRSITPENYSGNSNKHPTMMDSSTQDTYSLLPTYAAPQINDTNN
LVTYRSVMIPKAELCNQATQADSPPRLHDASTIVDENDQELSPIPTDIPPPPRSSLQSGI
LRQGSSSNAPTTPGTAKKRVQIQEISV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g6425.t1 | Gene3D | G3DSA:3.40.50.1820 | - | 341 | 876 | 7.0E-139 |
| 14 | g6425.t1 | Gene3D | G3DSA:3.40.50.1820 | - | 902 | 1120 | 7.4E-6 |
| 10 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 880 | 905 | - |
| 11 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 880 | 908 | - |
| 13 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 994 | 1052 | - |
| 9 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1002 | 1027 | - |
| 12 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1256 | 1286 | - |
| 7 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1264 | 1286 | - |
| 8 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1414 | 1467 | - |
| 6 | g6425.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1436 | 1467 | - |
| 2 | g6425.t1 | PANTHER | PTHR43903:SF15 | FI21425P1 | 322 | 1362 | 0.0 |
| 3 | g6425.t1 | PANTHER | PTHR43903 | NEUROLIGIN | 322 | 1362 | 0.0 |
| 1 | g6425.t1 | Pfam | PF00135 | Carboxylesterase family | 341 | 852 | 3.4E-125 |
| 16 | g6425.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 315 | - |
| 19 | g6425.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 316 | 337 | - |
| 18 | g6425.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 338 | 1215 | - |
| 20 | g6425.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1216 | 1243 | - |
| 17 | g6425.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1244 | 1467 | - |
| 5 | g6425.t1 | SUPERFAMILY | SSF53474 | alpha/beta-Hydrolases | 340 | 851 | 1.41E-103 |
| 4 | g6425.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 1221 | 1243 | - |
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