MS006785 (gene) Bitter gourd (TR) v1

Overview


Name	MS006785
Type	gene
Organism	Momordica charantia cv. TR (Bitter gourd (TR) v1)
Description	Polyadenylation and cleavage factor homolog 4
Location	scaffold60: 406707 .. 406877 (-)
RNA-Seq Expression	MS006785
Synteny	MS006785

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSpolypeptide

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

GAATCTGTGATAGTCGCGCTGTACGGTGATCTTGATCTCCTCCCCAACCAGTGTATAACATGTGGCCTTCGATTCAGCTCTCGGGAAAAGCTCCATGATCATATGGACTGGCATGGTAGGGAGCAAAAGACTTCTCGCGGTTGGTTCATGAATAAACCCTCATGGATTGCC

mRNA sequence

GAATCTGTGATAGTCGCGCTGTACGGTGATCTTGATCTCCTCCCCAACCAGTGTATAACATGTGGCCTTCGATTCAGCTCTCGGGAAAAGCTCCATGATCATATGGACTGGCATGGTAGGGAGCAAAAGACTTCTCGCGGTTGGTTCATGAATAAACCCTCATGGATTGCC

Coding sequence (CDS)

GAATCTGTGATAGTCGCGCTGTACGGTGATCTTGATCTCCTCCCCAACCAGTGTATAACATGTGGCCTTCGATTCAGCTCTCGGGAAAAGCTCCATGATCATATGGACTGGCATGGTAGGGAGCAAAAGACTTCTCGCGGTTGGTTCATGAATAAACCCTCATGGATTGCC

Protein sequence

ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWHGREQKTSRGWFMNKPSWIA

Homology

[Close]

BLAST of MS006785 vs. NCBI nr
Match: XP_022158857.1 (polyadenylation and cleavage factor homolog 4 isoform X3 [Momordica charantia])

HSP 1 Score: 71.6 bits (174), Expect = 2.4e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 798 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 857

[Close]

BLAST of MS006785 vs. NCBI nr
Match: XP_022158856.1 (polyadenylation and cleavage factor homolog 4 isoform X2 [Momordica charantia])

HSP 1 Score: 71.6 bits (174), Expect = 2.4e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 814 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 873

[Close]

BLAST of MS006785 vs. NCBI nr
Match: XP_022158855.1 (polyadenylation and cleavage factor homolog 4 isoform X1 [Momordica charantia])

HSP 1 Score: 71.6 bits (174), Expect = 2.4e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 819 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 878

[Close]

BLAST of MS006785 vs. NCBI nr
Match: XP_022158858.1 (polyadenylation and cleavage factor homolog 4 isoform X4 [Momordica charantia])

HSP 1 Score: 71.6 bits (174), Expect = 2.4e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 791 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 850

[Close]

BLAST of MS006785 vs. NCBI nr
Match: XP_009340948.1 (PREDICTED: polyadenylation and cleavage factor homolog 4-like isoform X1 [Pyrus x bretschneideri])

HSP 1 Score: 69.3 bits (168), Expect = 1.2e-08
Identity = 34/64 (53.12%), Postives = 39/64 (60.94%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 57
           ESVI ALYGD   LP QC TCGLRF  +E+   HMDWH         R+QK SR WF+N 
Sbjct: 795 ESVISALYGD---LPRQCTTCGLRFKCQEEHSSHMDWHVTKNRMSKNRKQKPSRKWFVNT 854

[Close]

BLAST of MS006785 vs. ExPASy Swiss-Prot
Match: Q0WPF2 (Polyadenylation and cleavage factor homolog 4 OS=Arabidopsis thaliana OX=3702 GN=PCFS4 PE=1 SV=1)

HSP 1 Score: 62.4 bits (150), Expect = 1.9e-09
Identity = 30/65 (46.15%), Postives = 37/65 (56.92%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ES I ALYGD   LP QC TCGLRF  +E+   HMDWH          +Q  SR WF++ 
Sbjct: 639 ESAISALYGD---LPRQCTTCGLRFKCQEEHSKHMDWHVTKNRMSKNHKQNPSRKWFVSA 698

[Close]

BLAST of MS006785 vs. ExPASy Swiss-Prot
Match: Q9C710 (Polyadenylation and cleavage factor homolog 1 OS=Arabidopsis thaliana OX=3702 GN=PCFS1 PE=1 SV=1)

HSP 1 Score: 57.4 bits (137), Expect = 6.2e-08
Identity = 28/69 (40.58%), Postives = 37/69 (53.62%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH-------------GREQKTSRG 57
           ESVI +LY D   +P QC +CGLRF  +E+   HMDWH             G++ K SRG
Sbjct: 242 ESVIKSLYSD---MPRQCSSCGLRFKCQEEHSKHMDWHVRKNRSVKTTTRLGQQPKKSRG 301

[Close]

BLAST of MS006785 vs. ExPASy Swiss-Prot
Match: Q9FIX8 (Polyadenylation and cleavage factor homolog 5 OS=Arabidopsis thaliana OX=3702 GN=PCFS5 PE=1 SV=1)

HSP 1 Score: 56.6 bits (135), Expect = 1.1e-07
Identity = 27/69 (39.13%), Postives = 37/69 (53.62%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH-------------GREQKTSRG 57
           ESVI +LY D   +P QC +CG+RF  +E+   HMDWH             G++ K SRG
Sbjct: 235 ESVIKSLYSD---MPRQCTSCGVRFKCQEEHSKHMDWHVRKNRSVKTTTRLGQQPKKSRG 294

[Close]

BLAST of MS006785 vs. ExPASy TrEMBL
Match: A0A6J1DX88 (polyadenylation and cleavage factor homolog 4 isoform X4 OS=Momordica charantia OX=3673 GN=LOC111025320 PE=4 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 1.2e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 791 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 850

[Close]

BLAST of MS006785 vs. ExPASy TrEMBL
Match: A0A6J1DY97 (polyadenylation and cleavage factor homolog 4 isoform X3 OS=Momordica charantia OX=3673 GN=LOC111025320 PE=4 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 1.2e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 798 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 857

[Close]

BLAST of MS006785 vs. ExPASy TrEMBL
Match: A0A6J1E267 (polyadenylation and cleavage factor homolog 4 isoform X2 OS=Momordica charantia OX=3673 GN=LOC111025320 PE=4 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 1.2e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 814 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 873

[Close]

BLAST of MS006785 vs. ExPASy TrEMBL
Match: A0A6J1DX06 (polyadenylation and cleavage factor homolog 4 isoform X1 OS=Momordica charantia OX=3673 GN=LOC111025320 PE=4 SV=1)

HSP 1 Score: 71.6 bits (174), Expect = 1.2e-09
Identity = 34/65 (52.31%), Postives = 43/65 (66.15%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ESVI ALYGD   LP QC+TCGLRF S+E+  +HMDWH         R+QKTS  W+++K
Sbjct: 819 ESVIAALYGD---LPRQCMTCGLRFKSQEEHSNHMDWHVTKNRMSKSRKQKTSCKWYVSK 878

[Close]

BLAST of MS006785 vs. ExPASy TrEMBL
Match: A0A498IWY0 (CID domain-containing protein OS=Malus domestica OX=3750 GN=DVH24_017016 PE=4 SV=1)

HSP 1 Score: 69.3 bits (168), Expect = 5.8e-09
Identity = 34/64 (53.12%), Postives = 39/64 (60.94%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 57
           ESVI ALYGD   LP QC TCGLRF  +E+   HMDWH         R+QK SR WF+N 
Sbjct: 796 ESVISALYGD---LPRQCTTCGLRFKCQEEHSSHMDWHVTKNRMSKNRKQKPSRKWFVNT 855

[Close]

BLAST of MS006785 vs. TAIR 10
Match: AT4G04885.1 (PCF11P-similar protein 4 )

HSP 1 Score: 62.4 bits (150), Expect = 1.4e-10
Identity = 30/65 (46.15%), Postives = 37/65 (56.92%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH--------GREQKTSRGWFMNK 58
           ES I ALYGD   LP QC TCGLRF  +E+   HMDWH          +Q  SR WF++ 
Sbjct: 639 ESAISALYGD---LPRQCTTCGLRFKCQEEHSKHMDWHVTKNRMSKNHKQNPSRKWFVSA 698

[Close]

BLAST of MS006785 vs. TAIR 10
Match: AT1G66500.1 (Pre-mRNA cleavage complex II )

HSP 1 Score: 57.4 bits (137), Expect = 4.4e-09
Identity = 28/69 (40.58%), Postives = 37/69 (53.62%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH-------------GREQKTSRG 57
           ESVI +LY D   +P QC +CGLRF  +E+   HMDWH             G++ K SRG
Sbjct: 242 ESVIKSLYSD---MPRQCSSCGLRFKCQEEHSKHMDWHVRKNRSVKTTTRLGQQPKKSRG 301

[Close]

BLAST of MS006785 vs. TAIR 10
Match: AT5G43620.1 (Pre-mRNA cleavage complex II )

HSP 1 Score: 56.6 bits (135), Expect = 7.5e-09
Identity = 27/69 (39.13%), Postives = 37/69 (53.62%), Query Frame = 0


Query: 1   ESVIVALYGDLDLLPNQCITCGLRFSSREKLHDHMDWH-------------GREQKTSRG 57
           ESVI +LY D   +P QC +CG+RF  +E+   HMDWH             G++ K SRG
Sbjct: 235 ESVIKSLYSD---MPRQCTSCGVRFKCQEEHSKHMDWHVRKNRSVKTTTRLGQQPKKSRG 294

The following BLAST results are available for this feature:

BLAST of MS006785 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022158857.1	2.4e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X3 [Momordica charantia]	[more]
XP_022158856.1	2.4e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X2 [Momordica charantia]	[more]
XP_022158855.1	2.4e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X1 [Momordica charantia]	[more]
XP_022158858.1	2.4e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X4 [Momordica charantia]	[more]
XP_009340948.1	1.2e-08	53.13	PREDICTED: polyadenylation and cleavage factor homolog 4-like isoform X1 [Pyrus ...	[more]

BLAST of MS006785 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q0WPF2	1.9e-09	46.15	Polyadenylation and cleavage factor homolog 4 OS=Arabidopsis thaliana OX=3702 GN...	[more]
Q9C710	6.2e-08	40.58	Polyadenylation and cleavage factor homolog 1 OS=Arabidopsis thaliana OX=3702 GN...	[more]
Q9FIX8	1.1e-07	39.13	Polyadenylation and cleavage factor homolog 5 OS=Arabidopsis thaliana OX=3702 GN...	[more]

BLAST of MS006785 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1DX88	1.2e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X4 OS=Momordica charantia ...	[more]
A0A6J1DY97	1.2e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X3 OS=Momordica charantia ...	[more]
A0A6J1E267	1.2e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X2 OS=Momordica charantia ...	[more]
A0A6J1DX06	1.2e-09	52.31	polyadenylation and cleavage factor homolog 4 isoform X1 OS=Momordica charantia ...	[more]
A0A498IWY0	5.8e-09	53.13	CID domain-containing protein OS=Malus domestica OX=3750 GN=DVH24_017016 PE=4 SV...	[more]

BLAST of MS006785 vs. TAIR 10


Match Name	E-value	Identity	Description
AT4G04885.1	1.4e-10	46.15	PCF11P-similar protein 4	[more]
AT1G66500.1	4.4e-09	40.58	Pre-mRNA cleavage complex II	[more]
AT5G43620.1	7.5e-09	39.13	Pre-mRNA cleavage complex II	[more]

InterPro

Analysis Name: InterPro Annotations of Bitter gourd (TR) v1
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	GENE3D	3.30.160.60	Classic Zinc Finger	coord: 13..54 e-value: 1.5E-5 score: 26.7
IPR013087	Zinc finger C2H2-type	PROSITE	PS00028	ZINC_FINGER_C2H2_1	coord: 18..38
IPR013087	Zinc finger C2H2-type	PROSITE	PS50157	ZINC_FINGER_C2H2_2	coord: 16..43 score: 9.473253
IPR036236	Zinc finger C2H2 superfamily	SUPERFAMILY	57667	beta-beta-alpha zinc fingers	coord: 15..40

Relationships

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


Feature Name	Unique Name	Type
MS006785.1	MS006785.1	mRNA