Gene loci information

Transcript annotation

  • This transcript has been annotated as Condensin complex subunit 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_3 g2753 g2753.t1 TSS g2753.t1 19986804 19986804
chr_3 g2753 g2753.t1 isoform g2753.t1 19986884 19999385
chr_3 g2753 g2753.t1 exon g2753.t1.exon1 19986884 19987001
chr_3 g2753 g2753.t1 cds g2753.t1.CDS1 19986884 19987001
chr_3 g2753 g2753.t1 exon g2753.t1.exon2 19987068 19988943
chr_3 g2753 g2753.t1 cds g2753.t1.CDS2 19987068 19988943
chr_3 g2753 g2753.t1 exon g2753.t1.exon3 19989002 19989223
chr_3 g2753 g2753.t1 cds g2753.t1.CDS3 19989002 19989223
chr_3 g2753 g2753.t1 exon g2753.t1.exon4 19989285 19990890
chr_3 g2753 g2753.t1 cds g2753.t1.CDS4 19989285 19990890
chr_3 g2753 g2753.t1 exon g2753.t1.exon5 19990957 19991356
chr_3 g2753 g2753.t1 cds g2753.t1.CDS5 19990957 19991356
chr_3 g2753 g2753.t1 exon g2753.t1.exon6 19991721 19991760
chr_3 g2753 g2753.t1 cds g2753.t1.CDS6 19991721 19991760
chr_3 g2753 g2753.t1 exon g2753.t1.exon7 19997329 19997477
chr_3 g2753 g2753.t1 cds g2753.t1.CDS7 19997329 19997477
chr_3 g2753 g2753.t1 exon g2753.t1.exon8 19997539 19997945
chr_3 g2753 g2753.t1 cds g2753.t1.CDS8 19997539 19997945
chr_3 g2753 g2753.t1 exon g2753.t1.exon9 19998043 19998186
chr_3 g2753 g2753.t1 cds g2753.t1.CDS9 19998043 19998186
chr_3 g2753 g2753.t1 exon g2753.t1.exon10 19999230 19999385
chr_3 g2753 g2753.t1 cds g2753.t1.CDS10 19999230 19999385
chr_3 g2753 g2753.t1 TTS g2753.t1 NA NA

Sequences

>g2753.t1 Gene=g2753 Length=5118
ATGGAATTTGAGTTTATCATTCCACAAAAGAATTCAGATTTGTTGGAACAAGGATCGGGT
AATTCATTTTGTGTATCAAAAATTTACAATGAAAAGGAATGTACAGAAAAATTACGGCTT
GCCCGACTTGCATTCACAGAACATGGCATTGTTTACATATTTGATGCTTTTGAAGCATTC
TTTTCGATCATAGATATTGCGAAAGATTTACAAAAACAAACAATCTTTCGCGCTATTGAT
CTTTTATTCAAATCTATTGATCAACTTGGGCAAGAACTTGCTGAAGTCCTACAATCACCA
AATATTTTGACACCTGAAGAACGAAGTGTTAAACTCAATGCATTAAAAATGCTCGTATAT
ACACAAATTACTCTCTCGAAGAAAATTGATAGTGATGTGTTCAGTTATACAGAAGGAAGA
GGTGGAGGGAAACAGAAATATAAACCTTCATCAGATAATCCTGAACATTTTCAATGGGAG
GACAGACGTTATAAAGTTTTATTACAATTATTCAACATTCTGCAATTGCCACTTGAGAAT
CTTTGGCAGCCACCTGTTGCAGAGGAAGCGTTTGTTAATCTTTGTGCTGATATTGCTTAT
CGTTCACTAGAACATCCAACAATCAAAGATAAGAACGTTGTTGATACTTCATTTCAAATT
TTGGGAACACTTTTGAAACGTTTTAATCATTCTCTTGTTTTTCCTGTAAAAACATTTGAA
ATTCTAAAGTCTTGTGAAATGTCAGTTTCGCCTATTGCTCATGGTTTAGTAATGTTGCAC
GAGCAATATGGTATTCAAACAGTTTTCAAAGTTATGATTGAGCAGATTCTTGAAGGATTA
GATGATGCTGCTGATTCAGCTACAGTAAAAAATATTTCGACATTCTTCACAGAACTAGGA
AATATTGCACCAATTTTGCTTATGCCATTTGTTCGTGATATTGCTAGTGACGTGTTGAAT
TTGGAATCATATCAATTGCGGGTTTGCATTTTACAATTGATGTCAGAAATCGTTTGTGCA
GAACTTACTGCTGAAAATCTTCAACAAGATTTAAAAGATATTCGCGATGAATATTTGGAA
CACATTTATGAACACATTCATGATGTTAATGCTCATGTTCGGTCAAAAGCATTAGCGTTA
TGGACTCATATGAAAAACTTTAACGCCGTGCCAGTTGCGTGGTTATCAAAAGTTATGAGA
TTAGCTGTTGGTCGTCTGGAAGATAAATCTGCTCTTGTCCGTAAAAATTCTATTATTTTA
ATTACATCGTTTCTGGAAAGAAATCCATTCGCATCAAAATTATCAATTGAGGAATTAGAA
AAGCGTCATCAAGAAAAAATTAAGGAATTGAGTGATTTTCGTAGTAAATTAATAGCTGAA
TCAGACAAAATGGATGAAGTGAATGCCAAATGGGAAGAACTTATGGAAGAGATGAAAATT
CATGTCATAAAAGTACTTGAGCAAGCTTCAATTGAAGATGAAGATATTCGAGCAGAAGAC
TGTGCACAGTTGTATGAAAATTTTGCAAAGATGGTAGAGGAAAAGAATTATAGACGTCTT
ATATTACTTGTTCGCAAAGCTGAAGAATTAAATGGAAACTGGGAAACTGTCAGGGGCTTT
CAACAAGAAGAAGGATTCTTATACTTTGCTGTACTTCTCAAATCATATTTTCTTTTGCAA
AGTAATTTTAAAAACTATGAAGATGACTATAAGAAGACTGATAATGCAGTTCGTTATTTG
GATGATTGTCTAGAATTTTCAAGACTCTTGGTTGATGCTGTACCAAAACTTCAACATCTT
ATGATGTCAAAAACAGATTCTGATTCAACGGAAGCCATCAACTTTTTTACTACTGCATAT
CTTTTTGGTATTAAAAACACTGAAAGTGGTATTCGTCAAATGCTTTATTTAGTATGGGCT
ACTGCAAAAGATAAACGTGAACCAGTTCGAGAAGCTTTTAAACATGTTTTATGGAAAACT
GATCAACAAGGACGTGCACATTCTGTGAAAGTTGTCTTTAATTTAATGAAGTTTATTGAG
GGATTAACATTCAGCCATTATATAGCATTTGAAGAACTTATTAGAGATTTTGTACTCAGT
GATGACATTGACAATTCAATGATTCAAGTCATGTTTGAAATTTATACGAAAAAGTTGGAA
AATGTTACAAATAATGAAGCTCGATTAGCGTTACAACTTCTTATTATTTGCTCATCAGCT
AAACCTGCTATTGCCCGTGTCAATTCTGAAGTAGTTGAACAAATTGGATTTGGTGAGCGT
GGACAGAAAGATCCAAGAATTTATGTACAAACCTTAGAATTTCTTATGAACTATTACGCT
GACAGAGAAGATCAATTGTATCCACGTATTGAAATTGACCATGAGCGAGTAGACACAATT
TCAAGAATGTTCAAAAAGTTCTTTACGACTGAAAAAATTTCAAATTTTGACGACATTTGT
AGTAAAACATTTCAATACATCTATAAAATGTGCCATCAACCAAATTGTATTAGTCAAAAA
ATCATCTTTACTCTATGGGATGAATTAAGAAAAATTTCAGAGAAAGTAACTGGAAATGAA
TATATTCAACAAGAGAATGATAATGATCAAGGGCTTACACAAACACCGTTCATACGTCCA
AGTCAGAACGGGTCATTGTTGTTTGTAGGAGCAATGAAACTGCCTTCATTTCTACTGTCT
CGTTTCATTTTTATGATTGGTTATGTTGCAATGAAAGAGTTAATTTATTTGGATATAGAT
ATTTATTCGAACCTTAAATATCGACAAGAATTGGCAGATATTCAAAAGAACAAGAAAAAG
AACACAGAAAAGACTAACGGACGACGAACGACATTGAATATGTCTGCAACAGCAGCCGTG
CGTAAATCAATGTATCACAATCCTGAAGAAGAAAACAATGAGGAAGATGTAATTGGGCCT
ACGGCTGAAGATGCTTTTGCGGAACAAATTAATACGATTTGTGAACACGAGTTACTTTTC
CATAAGAATGGTTTATTCCGTAAATTTGTTCCTTTGATACTTGAAGTACTAAAATTTCCT
AAACGCTTCAATAATGCTGAATTACAAAGATCTGCTCTACTTGCTCTTATTCATTTCATG
TCTGTAAGTTCAGAATTCTGTCAAAGGAACATGGAATTTTTGATGAATATATTTTCACAC
TCTCAAGACATAGATATCAAATGTAATGTTATTATTGGCATGAGCGATTTAACATTCCGA
TTTCCAAATATTATTGAACCGTGGAGTGCTCATATGTATTCAACATTACACGATGAAAAT
CGCGAATTACGTCTTACCAGTGTAAGAATCTTATCACACTTAATTTCTCATGAAATGATT
TTAATTAAAGGACAAATTTCGGATCTTGCAATGTGTCTTGTTGATAAAGATGATGAAATT
CGTACATCCACAGAAGTGTTTTTCAATGAAATTGCTCATAAATCAAACATTCTTTATAAC
GTTTTGCCGGATATTATAAGTCGATTAGGGGATCCAAATTTACATCTTGAGGAAGGAAAA
TATCAAATTATTATGCGTTATATCATTGGTTTAATCAATAAGGATCGACAAATTGAAAAT
TTAGTTGATAAACTGTGTTATCGCTTTAAGATTACAGAACAAGAAAGGCAATGGCGTGAT
ATCGCTTTCTGCTTATCTCTTTTATCATATACTGAGAAAACTATTAAGAAACTGATTGAA
AATATTATTTTCTTCAAAGACAAAGTACAAATTCAAGAAGTTTATGATTATTTCCGGCAC
ATAATTTCAAGTACTCTCAAGTTGGCAAAACCAGAATTAAAGACAGTCGTACAAGAATTT
GAAAGTAAATTAGAAGAGTGTCTTCAAGTTAATGATAATCCAACTGAACAAAATGAAGAT
CCAAATAACGAAATAACAATTTCACGTCGTAATGTTCCAATTGTTAAAAGGACTGCTGGT
AAAGGAAAAGCAAGAGGTAAAATAAATCAAACTCGAACAGTTGGTCGTGGTCGTCGTCAG
CAACGAGAATCTAGTGAAAGTGACGAGAGCGAGGCAGAAAATAATCCTAAAAAAGGTAGA
CGTCATAAAACCCGAGTTGTTGAATCTGATTCAGATGAAGAGCCCGAAAGGCCTAGAAAA
GTGCCACAAAGTAATAGGAAGATTCCTCCTCGTTCAACAAGATCAAACCGCAGCAAAGTT
ATTGAAGATGTAACCTCATCAGATGAAAATCCGGAAAGAAGTAAGAAGCCAATGAGTAAA
AGGTTTAGCTCGGGCGATTTGAGTACCGAGTGTGATGAAGGAGAACAAAGTGGTGATGCT
ACTAATGCAACAACAACAACTGGTAATCGCCCGCCGCCATTGCAAACGCAACCAGTTGGC
GGTGGACCACCAAATATACCAGCTCCATCAGCGCCTGGTTCTGCAGGTCCAACATCAACC
GGACCAGAATTGTCGTTGAGTTTTGGTTCAAAAGGACCGAAACACACTTCGGCGCCATCA
AGTCCGGCAAAATCACGCGAAAGTTTATTGCAACGCGTGCAGAGTTTAACTGGCGCAGCA
CGAGATCAAGGCGCGAGTATAATTGGTGCTGCGGCATCGACCGTTTCACGCGTGCAAGCA
TTTAATAAAGATCGCTGCTTTATTTTGCTTGTCATTGATGATCAGAATACTGATTGGTCG
AAATATTTCCGTGGTAAGCGATTGCATGGCGATTATGATATTCGCGTTGAGCAGGCCGAA
TTTAGTGAAATTTCGGTGGTTGCGAGCGGTGAAAACGGTCCAACTGTATCCATTGTGAGT
TATCGAAGTGGATCGAAGGCTTCACGGTCTTTTAGACCAGACTTTGTGCTGATTCGACAA
CCACCGCGTGATGGTTCAAAAGACTACCGTTCAACATTGTTAGGACTTAAATATGGTGGT
GTTCCTTCAATTAATTCTCTTAATTCCATCTACCAGTTCCAGGATCGACCGAATGTTTTT
GCCGCACTTCTGCAATTACAACGTCGCCTAGGAAAGGAACAATTCCCATTAATTGAACAA
CACTTCTTTCCAAGTCCCAACGAATTGGTGAGTAATAAAAATATCAATCACTTTTTTTGC
TGCTATCAGATGATATAA

>g2753.t1 Gene=g2753 Length=1705
MEFEFIIPQKNSDLLEQGSGNSFCVSKIYNEKECTEKLRLARLAFTEHGIVYIFDAFEAF
FSIIDIAKDLQKQTIFRAIDLLFKSIDQLGQELAEVLQSPNILTPEERSVKLNALKMLVY
TQITLSKKIDSDVFSYTEGRGGGKQKYKPSSDNPEHFQWEDRRYKVLLQLFNILQLPLEN
LWQPPVAEEAFVNLCADIAYRSLEHPTIKDKNVVDTSFQILGTLLKRFNHSLVFPVKTFE
ILKSCEMSVSPIAHGLVMLHEQYGIQTVFKVMIEQILEGLDDAADSATVKNISTFFTELG
NIAPILLMPFVRDIASDVLNLESYQLRVCILQLMSEIVCAELTAENLQQDLKDIRDEYLE
HIYEHIHDVNAHVRSKALALWTHMKNFNAVPVAWLSKVMRLAVGRLEDKSALVRKNSIIL
ITSFLERNPFASKLSIEELEKRHQEKIKELSDFRSKLIAESDKMDEVNAKWEELMEEMKI
HVIKVLEQASIEDEDIRAEDCAQLYENFAKMVEEKNYRRLILLVRKAEELNGNWETVRGF
QQEEGFLYFAVLLKSYFLLQSNFKNYEDDYKKTDNAVRYLDDCLEFSRLLVDAVPKLQHL
MMSKTDSDSTEAINFFTTAYLFGIKNTESGIRQMLYLVWATAKDKREPVREAFKHVLWKT
DQQGRAHSVKVVFNLMKFIEGLTFSHYIAFEELIRDFVLSDDIDNSMIQVMFEIYTKKLE
NVTNNEARLALQLLIICSSAKPAIARVNSEVVEQIGFGERGQKDPRIYVQTLEFLMNYYA
DREDQLYPRIEIDHERVDTISRMFKKFFTTEKISNFDDICSKTFQYIYKMCHQPNCISQK
IIFTLWDELRKISEKVTGNEYIQQENDNDQGLTQTPFIRPSQNGSLLFVGAMKLPSFLLS
RFIFMIGYVAMKELIYLDIDIYSNLKYRQELADIQKNKKKNTEKTNGRRTTLNMSATAAV
RKSMYHNPEEENNEEDVIGPTAEDAFAEQINTICEHELLFHKNGLFRKFVPLILEVLKFP
KRFNNAELQRSALLALIHFMSVSSEFCQRNMEFLMNIFSHSQDIDIKCNVIIGMSDLTFR
FPNIIEPWSAHMYSTLHDENRELRLTSVRILSHLISHEMILIKGQISDLAMCLVDKDDEI
RTSTEVFFNEIAHKSNILYNVLPDIISRLGDPNLHLEEGKYQIIMRYIIGLINKDRQIEN
LVDKLCYRFKITEQERQWRDIAFCLSLLSYTEKTIKKLIENIIFFKDKVQIQEVYDYFRH
IISSTLKLAKPELKTVVQEFESKLEECLQVNDNPTEQNEDPNNEITISRRNVPIVKRTAG
KGKARGKINQTRTVGRGRRQQRESSESDESEAENNPKKGRRHKTRVVESDSDEEPERPRK
VPQSNRKIPPRSTRSNRSKVIEDVTSSDENPERSKKPMSKRFSSGDLSTECDEGEQSGDA
TNATTTTGNRPPPLQTQPVGGGPPNIPAPSAPGSAGPTSTGPELSLSFGSKGPKHTSAPS
SPAKSRESLLQRVQSLTGAARDQGASIIGAAASTVSRVQAFNKDRCFILLVIDDQNTDWS
KYFRGKRLHGDYDIRVEQAEFSEISVVASGENGPTVSIVSYRSGSKASRSFRPDFVLIRQ
PPRDGSKDYRSTLLGLKYGGVPSINSLNSIYQFQDRPNVFAALLQLQRRLGKEQFPLIEQ
HFFPSPNELVSNKNINHFFCCYQMI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
22 g2753.t1 Coils Coil Coil 330 364 -
21 g2753.t1 Coils Coil Coil 436 456 -
20 g2753.t1 Coils Coil Coil 924 944 -
19 g2753.t1 Gene3D G3DSA:1.25.10.10 - 984 1205 2.5E-7
18 g2753.t1 Gene3D G3DSA:3.40.50.20 - 1547 1659 2.6E-45
14 g2753.t1 MobiDBLite mobidb-lite consensus disorder prediction 1288 1452 -
15 g2753.t1 MobiDBLite mobidb-lite consensus disorder prediction 1288 1309 -
16 g2753.t1 MobiDBLite mobidb-lite consensus disorder prediction 1336 1383 -
13 g2753.t1 MobiDBLite mobidb-lite consensus disorder prediction 1396 1420 -
12 g2753.t1 MobiDBLite mobidb-lite consensus disorder prediction 1421 1452 -
17 g2753.t1 MobiDBLite mobidb-lite consensus disorder prediction 1489 1509 -
5 g2753.t1 PANTHER PTHR14222 CONDENSIN 1 1374 1.1E-263
6 g2753.t1 PANTHER PTHR14222:SF2 CONDENSIN COMPLEX SUBUNIT 1 1 1374 1.1E-263
7 g2753.t1 PRINTS PR01368 Synapsin signature 1558 1567 4.6E-11
8 g2753.t1 PRINTS PR01368 Synapsin signature 1573 1585 4.6E-11
9 g2753.t1 PRINTS PR01368 Synapsin signature 1609 1620 4.6E-11
2 g2753.t1 Pfam PF12922 non-SMC mitotic condensation complex subunit 1, N-term 76 233 4.8E-26
1 g2753.t1 Pfam PF12717 non-SMC mitotic condensation complex subunit 1 1066 1226 2.2E-41
4 g2753.t1 Pfam PF02078 Synapsin, N-terminal domain 1544 1643 2.4E-42
3 g2753.t1 Pfam PF02750 Synapsin, ATP binding domain 1645 1693 2.0E-9
11 g2753.t1 SUPERFAMILY SSF48371 ARM repeat 174 1238 7.41E-33
10 g2753.t1 SUPERFAMILY SSF52440 PreATP-grasp domain 1546 1644 1.09E-37

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:0030261 chromosome condensation BP
GO:0007269 neurotransmitter secretion BP
GO:0005634 nucleus CC
GO:0000278 mitotic cell cycle BP
GO:0008021 synaptic vesicle CC
GO:0007076 mitotic chromosome condensation BP

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