Lag0015647 (gene) Sponge gourd (AG‐4) v1

Overview


Name	Lag0015647
Type	gene
Organism	Luffa acutangula (Sponge gourd (AG‐4) v1)
Description	THO complex subunit 4D
Location	chr12: 18578896 .. 18580393 (+)
RNA-Seq Expression	Lag0015647
Synteny	Lag0015647

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGAGAAATTTAGGAGTTCGATACGACGAGGATCGTGGTGGTGTTGGTGTGTGTTTGGTTTATGCTCATCAGGTGTTCGATGATATGTCTCCAAAACTAGAGAGGCCAAATTATAATGGAAAATTAATATGGAATTCCCCTTTTTTTTTCCTTTTATTGGCATTGTGTGTTGATGAAGAGTGAAACGTCGAGCCCAAATTGAGATGATCTTTTTATACTGATGCTTACACGCCTGTTTTGTCCTTTGTTTTCATGTAAAATAGCTGTAGTTGTACATGCCTTACCTCGTAATCATTCCTTCAATCAATGAAACGGAGCTGGGGTTTCTGTTTTGCTTTTTGTCTTTGAAATTGGTTGCAACAATGTTGTTTGTTGGAATGTTTTGGTTTCTTTTCCATTCTTCTAAGGAGTTATTATAAAAGTTTTGGGTTTCTTTTCCATTCTTCTAAGAACTAACCGTTGAGGTTTTGTGATTCTTTCTCAATATATTTGTATTTTTATATGTAAATCGTGCACGTACAGTTTTGTGTCTAAGTTTGAAACTTAGTCAAGTAATGTAGGCAACTATTTCAAATTTATAATCTTTCATATGTTACAGTTATGTGTTTTACTTCTTTGATATGTTAATTTAATTGTTCACAAATGACTGAAGCTATGATTGTACAGGTACAAATTGGATGCGGTGGATCTTTTTAGTTGTTCTTAAATTTCTGCCTATGGTATCAATACACCAGAAGTGATATGAAAACATTTGAGTGGAGGTTAGTTGCCATTAATCATTCATAATGTATTTGAGTTAGATTGAATCAAGACGTGCATCTTATTTGCTCCTACTATTGAAATTCTTTGTTAATTTGAAGATTTTAATTAGTAATGTTATTGTCACGTATGATTGTTCTCTTATTGTCGCAGTGGTGCCATGGCCTCATTCTTTAGTGCATATTGTTCCTTGACCGTGTGTTCTGATTCTTGTTCTTCTAGCTTGTCTCTGCCTATTCTTGTTATTCATATTTTGTTTCTTTTTTTTTTTTTTGGAAAATGATACTTTATTGAAAATCGCATGTAAGAGGCATACGGGGAGAAGTTACATAATAGCTTTCCAATTCAAAGCTATAGAAGAAACATCATAATTCAAGAAGAGCTTTGAAGAGGAGGACCAGGTTGTGGCGGAGGCGATAAGTTAACATGCGATTATAAGCACATATGATAATTATTGTACTCCTTTTTTAAATGTTTTCTTAATAGTTAGCTATCTTATCAAGCTTTAGTTGGCTGATAAACTTTCCATTGTTTATTAAAGGGCTCGACAAAGGTGGTATATACTCATAGAAGTGATGCATTTGCTACTCTGAAGTGCTATAACAATGTTTTACTAGATGGGAAGCCAATGAAGATTGAAATGCTTGGTGATAATGCTGAAATGTCAGTTTCTACATGTATAAATGTTACTAGAGTGAATGGAAGAAGTAGGACAGTTGTTCTAACGTACGTATTCTAG

mRNA sequence

ATGAGAAATTTAGGAGTTCGATACGACGAGGATCGTGGTGGTGTTGGTGTGTGTTTGGTTTATGCTCATCAGGGCTCGACAAAGGTGGTATATACTCATAGAAGTGATGCATTTGCTACTCTGAAGTGCTATAACAATGTTTTACTAGATGGGAAGCCAATGAAGATTGAAATGCTTGGTGATAATGCTGAAATGTCAGTTTCTACATGTATAAATGTTACTAGAGTGAATGGAAGAAGTAGGACAGTTGTTCTAACGTACGTATTCTAG

Coding sequence (CDS)

ATGAGAAATTTAGGAGTTCGATACGACGAGGATCGTGGTGGTGTTGGTGTGTGTTTGGTTTATGCTCATCAGGGCTCGACAAAGGTGGTATATACTCATAGAAGTGATGCATTTGCTACTCTGAAGTGCTATAACAATGTTTTACTAGATGGGAAGCCAATGAAGATTGAAATGCTTGGTGATAATGCTGAAATGTCAGTTTCTACATGTATAAATGTTACTAGAGTGAATGGAAGAAGTAGGACAGTTGTTCTAACGTACGTATTCTAG

Protein sequence

MRNLGVRYDEDRGGVGVCLVYAHQGSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMSVSTCINVTRVNGRSRTVVLTYVF

Homology

[Close]

BLAST of Lag0015647 vs. NCBI nr
Match: TYK01611.1 (THO complex subunit 4D [Cucumis melo var. makuwa])

HSP 1 Score: 99.4 bits (246), Expect = 1.7e-17
Identity = 53/65 (81.54%), Postives = 55/65 (84.62%), Query Frame = 0


Query: 25  GSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMSVSTCINVTRVNGRS-RTV 84
           GS +VVYT RSDAFA LK YNNVLLDGKPMKIEMLGDNAEM VS  INVT  NGR+ RTV
Sbjct: 166 GSAEVVYTRRSDAFAALKRYNNVLLDGKPMKIEMLGDNAEMPVSARINVTGTNGRNRRTV 225

Query: 85  VLTYV 89
           VLTYV
Sbjct: 226 VLTYV 230

[Close]

BLAST of Lag0015647 vs. NCBI nr
Match: XP_038896761.1 (THO complex subunit 4D-like [Benincasa hispida])

HSP 1 Score: 96.7 bits (239), Expect = 1.1e-16
Identity = 52/63 (82.54%), Postives = 54/63 (85.71%), Query Frame = 0


Query: 25  GSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMSVSTCINVTRVNGRS-RTV 84
           GS +VVYT RSDAFA LK YNNVLLDG+PMKIEMLGDNAEM VS  INVT VNGRS RTV
Sbjct: 138 GSAEVVYTRRSDAFAALKRYNNVLLDGRPMKIEMLGDNAEMPVSARINVTGVNGRSRRTV 197

Query: 85  VLT 87
           VLT
Sbjct: 198 VLT 200

[Close]

BLAST of Lag0015647 vs. NCBI nr
Match: XP_008457020.1 (PREDICTED: THO complex subunit 4D [Cucumis melo])

HSP 1 Score: 95.1 bits (235), Expect = 3.2e-16
Identity = 51/63 (80.95%), Postives = 53/63 (84.13%), Query Frame = 0


Query: 25  GSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMSVSTCINVTRVNGRS-RTV 84
           GS +VVYT RSDAFA LK YNNVLLDGKPMKIEMLGDNAEM VS  INVT  NGR+ RTV
Sbjct: 138 GSAEVVYTRRSDAFAALKRYNNVLLDGKPMKIEMLGDNAEMPVSARINVTGTNGRNRRTV 197

Query: 85  VLT 87
           VLT
Sbjct: 198 VLT 200

[Close]

BLAST of Lag0015647 vs. NCBI nr
Match: XP_004145851.1 (THO complex subunit 4D [Cucumis sativus] >KAE8650594.1 hypothetical protein Csa_011773 [Cucumis sativus])

HSP 1 Score: 95.1 bits (235), Expect = 3.2e-16
Identity = 51/63 (80.95%), Postives = 53/63 (84.13%), Query Frame = 0


Query: 25  GSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMSVSTCINVTRVNGRS-RTV 84
           GS +VVYT RSDAFA LK YNNVLLDGKPMKIEMLGDNAEM VS  INVT  NGR+ RTV
Sbjct: 138 GSAEVVYTRRSDAFAALKRYNNVLLDGKPMKIEMLGDNAEMPVSARINVTGTNGRNRRTV 197

Query: 85  VLT 87
           VLT
Sbjct: 198 VLT 200

[Close]

BLAST of Lag0015647 vs. NCBI nr
Match: XP_022143379.1 (THO complex subunit 4D-like [Momordica charantia])

HSP 1 Score: 95.1 bits (235), Expect = 3.2e-16
Identity = 51/63 (80.95%), Postives = 54/63 (85.71%), Query Frame = 0


Query: 25  GSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMSVSTCINVTRVNGRS-RTV 84
           GS +VVYT RSDAFA LK YNNVLLDGKPMKIE+LGDNAEM VS  INVT +NGRS RTV
Sbjct: 137 GSAEVVYTRRSDAFAALKRYNNVLLDGKPMKIEILGDNAEMPVSARINVTGLNGRSRRTV 196

Query: 85  VLT 87
           VLT
Sbjct: 197 VLT 199

[Close]

BLAST of Lag0015647 vs. ExPASy Swiss-Prot
Match: Q6NQ72 (THO complex subunit 4D OS=Arabidopsis thaliana OX=3702 GN=ALY4 PE=1 SV=1)

HSP 1 Score: 67.4 bits (163), Expect = 9.3e-11
Identity = 37/66 (56.06%), Postives = 47/66 (71.21%), Query Frame = 0


Query: 25  GSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDN----AEMSVSTCINVTRVNGR- 84
           G+ +VVY  RSDAF  LK YNNVLLDG+PM++E+LG N    A +S    +NVT +NGR 
Sbjct: 134 GTAEVVYPRRSDAFQALKKYNNVLLDGRPMRLEILGGNNSSEAPLSGRVNVNVTGLNGRL 193

Query: 85  SRTVVL 86
            RTVV+
Sbjct: 194 KRTVVI 199

[Close]

BLAST of Lag0015647 vs. ExPASy Swiss-Prot
Match: Q94EH8 (THO complex subunit 4C OS=Arabidopsis thaliana OX=3702 GN=ALY3 PE=1 SV=1)

HSP 1 Score: 66.2 bits (160), Expect = 2.1e-10
Identity = 33/61 (54.10%), Postives = 44/61 (72.13%), Query Frame = 0


Query: 25  GSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMS-VSTCINVTRVNGRSRTV 84
           GS +VVY  RSDA   ++ YNNVLLDG+PMK+E+LG N E + V+  +NVT +NGR +  
Sbjct: 148 GSAEVVYMRRSDAIQAMRKYNNVLLDGRPMKLEILGGNTESAPVAARVNVTGLNGRMKRS 207

[Close]

BLAST of Lag0015647 vs. ExPASy Swiss-Prot
Match: Q8L773 (THO complex subunit 4A OS=Arabidopsis thaliana OX=3702 GN=ALY1 PE=1 SV=1)

HSP 1 Score: 53.9 bits (128), Expect = 1.1e-06
Identity = 23/45 (51.11%), Postives = 34/45 (75.56%), Query Frame = 0


Query: 24  QGSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLGDNAEMSVS 69
           +G+ +VVY+ R DA A +K YN+V LDGKPMKIE++G N + + +
Sbjct: 128 KGTAEVVYSRRGDALAAVKKYNDVQLDGKPMKIEIVGTNLQTAAA 172

[Close]

BLAST of Lag0015647 vs. ExPASy Swiss-Prot
Match: Q8L719 (THO complex subunit 4B OS=Arabidopsis thaliana OX=3702 GN=ALY2 PE=1 SV=1)

HSP 1 Score: 51.6 bits (122), Expect = 5.3e-06
Identity = 27/62 (43.55%), Postives = 38/62 (61.29%), Query Frame = 0


Query: 1   MRNLGVRYDEDRGGVGVCLVYAHQGSTKVVYTHRSDAFATLKCYNNVLLDGKPMKIEMLG 60
           ++  G+ Y  DR G         +G+ +VV++ R DA A +K YNNV LDGK MKIE++G
Sbjct: 134 LKRYGIHY--DRSG-------RSKGTAEVVFSRRGDALAAVKRYNNVQLDGKLMKIEIVG 186

Query: 61  DN 63
            N
Sbjct: 194 TN 186

The following BLAST results are available for this feature:

BLAST of Lag0015647 vs. NCBI nr


Match Name	E-value	Identity	Description
TYK01611.1	1.7e-17	81.54	THO complex subunit 4D [Cucumis melo var. makuwa]	[more]
XP_038896761.1	1.1e-16	82.54	THO complex subunit 4D-like [Benincasa hispida]	[more]
XP_008457020.1	3.2e-16	80.95	PREDICTED: THO complex subunit 4D [Cucumis melo]	[more]
XP_004145851.1	3.2e-16	80.95	THO complex subunit 4D [Cucumis sativus] >KAE8650594.1 hypothetical protein Csa_...	[more]
XP_022143379.1	3.2e-16	80.95	THO complex subunit 4D-like [Momordica charantia]	[more]

BLAST of Lag0015647 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q6NQ72	9.3e-11	56.06	THO complex subunit 4D OS=Arabidopsis thaliana OX=3702 GN=ALY4 PE=1 SV=1	[more]
Q94EH8	2.1e-10	54.10	THO complex subunit 4C OS=Arabidopsis thaliana OX=3702 GN=ALY3 PE=1 SV=1	[more]
Q8L773	1.1e-06	51.11	THO complex subunit 4A OS=Arabidopsis thaliana OX=3702 GN=ALY1 PE=1 SV=1	[more]
Q8L719	5.3e-06	43.55	THO complex subunit 4B OS=Arabidopsis thaliana OX=3702 GN=ALY2 PE=1 SV=1	[more]

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (AG-4) v1
Date Performed: 2022-08-01


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR19965:SF33	THO COMPLEX SUBUNIT 4C	coord: 15..86
None	No IPR available	PANTHER	PTHR19965	RNA AND EXPORT FACTOR BINDING PROTEIN	coord: 15..86

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
Lag0015647.1	Lag0015647.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
molecular_function	GO:0003723	RNA binding