MS022089 (gene) Bitter gourd (TR) v1

Overview
NameMS022089
Typegene
OrganismMomordica charantia cv. TR (Bitter gourd (TR) v1)
DescriptionRNA-binding protein 28
Locationscaffold47: 787923 .. 788636 (+)
RNA-Seq ExpressionMS022089
SyntenyMS022089
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.
ATGGGGAAGAACAAGAGAATTAGAGACGGCGGCGGGAAGGGAGCCGCCGGCGACCACTGCCCTTCCAAGGTTTTTGTCAAGAACTTGCCGTACTCCTTCACCAATTCGCAGGTTCGCACTTCCTATGTTGCTTGCTCGTTTCCTGAGGAAAAAACGGAGATGAAAATACGAATATAGATTTTTATTTTTATTTTTGCTGTTTTGTTCTTAATCTCAAACTTAAGGAAGCACGCAATCGAGTGTTTTTTGATGAGAAGTTATTGGTTTCACAAGAAGTTTACGAGAAAGCAATGTTTTGATTTGATTTCTATTTCTCTCGAATTGTTTTGCTGTTAATTGGAATGTTAGTGACCTTTTCCTTTATTTTCTCAATGAACTAGCTCGAAGAAACATTCAGTGATGTTGGACCGGTCCGGCGGTGCTTCATGGTTACTCAGAAGGGTAAATACATCTGTGCATGGCTATCTTAAATTGGGGTTTAATTGCACTTAGTGTACTTTTATCCTTTTTCATTGAAAGATCCTCTTTCGTGAGCCTCATTCTGCATTTCCGTTTTTGGGCGATTGAATAGAAGCTGACTGTTGTGCTTTATTGTTTCGACCTCTTCAGTTCAGACGACATGTTGAGATATGTTCATTGTTAATTCTTTTAAACCTATCTTATCTTGTTTCATCAGGTTCAACTGAGCACCGCGGTTTTGGATTTGTGCAATTG

mRNA sequence

ATGGGGAAGAACAAGAGAATTAGAGACGGCGGCGGGAAGGGAGCCGCCGGCGACCACTGCCCTTCCAAGGTTTTTGTCAAGAACTTGCCGTACTCCTTCACCAATTCGCAGCTCGAAGAAACATTCAGTGATGTTGGACCGGTCCGGCGGTGCTTCATGGTTACTCAGAAGGGTTCAACTGAGCACCGCGGTTTTGGATTTGTGCAATTG

Coding sequence (CDS)

ATGGGGAAGAACAAGAGAATTAGAGACGGCGGCGGGAAGGGAGCCGCCGGCGACCACTGCCCTTCCAAGGTTTTTGTCAAGAACTTGCCGTACTCCTTCACCAATTCGCAGCTCGAAGAAACATTCAGTGATGTTGGACCGGTCCGGCGGTGCTTCATGGTTACTCAGAAGGGTTCAACTGAGCACCGCGGTTTTGGATTTGTGCAATTG

Protein sequence

MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQL
Homology
BLAST of MS022089 vs. NCBI nr
Match: XP_022135783.1 (RNA-binding protein 28 isoform X1 [Momordica charantia])

HSP 1 Score: 149.4 bits (376), Expect = 1.1e-32
Identity = 69/69 (100.00%), Postives = 69/69 (100.00%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60
          MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST
Sbjct: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60

Query: 61 EHRGFGFVQ 70
          EHRGFGFVQ
Sbjct: 61 EHRGFGFVQ 69

BLAST of MS022089 vs. NCBI nr
Match: XP_022135784.1 (RNA-binding protein 28 isoform X2 [Momordica charantia])

HSP 1 Score: 149.4 bits (376), Expect = 1.1e-32
Identity = 69/69 (100.00%), Postives = 69/69 (100.00%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60
          MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST
Sbjct: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60

Query: 61 EHRGFGFVQ 70
          EHRGFGFVQ
Sbjct: 61 EHRGFGFVQ 69

BLAST of MS022089 vs. NCBI nr
Match: XP_038888249.1 (RNA-binding protein 28 [Benincasa hispida])

HSP 1 Score: 139.8 bits (351), Expect = 8.9e-30
Identity = 66/70 (94.29%), Postives = 68/70 (97.14%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKG-AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60
          MGKNKR++DGG KG AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS
Sbjct: 1  MGKNKRLKDGGEKGAAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60

Query: 61 TEHRGFGFVQ 70
          TEHRGFGFVQ
Sbjct: 61 TEHRGFGFVQ 70

BLAST of MS022089 vs. NCBI nr
Match: KAG7011721.1 (RNA-binding protein 28, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 137.9 bits (346), Expect = 3.4e-29
Identity = 65/70 (92.86%), Postives = 67/70 (95.71%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKG-AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60
          MGKNKR +DGG KG AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS
Sbjct: 16 MGKNKRFKDGGEKGAAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 75

Query: 61 TEHRGFGFVQ 70
          TEHRG+GFVQ
Sbjct: 76 TEHRGYGFVQ 85

BLAST of MS022089 vs. NCBI nr
Match: XP_023511705.1 (RNA-binding protein 28 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 137.9 bits (346), Expect = 3.4e-29
Identity = 65/70 (92.86%), Postives = 67/70 (95.71%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKG-AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60
          MGKNKR +DGG KG AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS
Sbjct: 1  MGKNKRFKDGGEKGAAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60

Query: 61 TEHRGFGFVQ 70
          TEHRG+GFVQ
Sbjct: 61 TEHRGYGFVQ 70

BLAST of MS022089 vs. ExPASy Swiss-Prot
Match: Q9NW13 (RNA-binding protein 28 OS=Homo sapiens OX=9606 GN=RBM28 PE=1 SV=3)

HSP 1 Score: 60.5 bits (145), Expect = 9.0e-09
Identity = 27/45 (60.00%), Postives = 34/45 (75.56%), Query Frame = 0

Query: 24 VFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFV 69
          +FV  LP S  + QLEE FS VGPV++CF+VT+KGS   RGFG+V
Sbjct: 6  LFVGRLPPSARSEQLEELFSQVGPVKQCFVVTEKGSKACRGFGYV 50

BLAST of MS022089 vs. ExPASy Swiss-Prot
Match: Q8CGC6 (RNA-binding protein 28 OS=Mus musculus OX=10090 GN=Rbm28 PE=1 SV=4)

HSP 1 Score: 60.5 bits (145), Expect = 9.0e-09
Identity = 27/45 (60.00%), Postives = 34/45 (75.56%), Query Frame = 0

Query: 24 VFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFV 69
          +FV  LP S  + QLEE FS VGPV++CF+VT+KGS   RGFG+V
Sbjct: 6  LFVGRLPPSARSDQLEELFSQVGPVKQCFVVTEKGSKACRGFGYV 50

BLAST of MS022089 vs. ExPASy Swiss-Prot
Match: O74400 (Uncharacterized RNA-binding protein C4F6.14 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=SPBC4F6.14 PE=1 SV=1)

HSP 1 Score: 47.8 bits (112), Expect = 6.0e-05
Identity = 20/47 (42.55%), Postives = 29/47 (61.70%), Query Frame = 0

Query: 22 SKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFV 69
          S +FV+NL +      L   FSDVGP++   +VT   + E+RG+GFV
Sbjct: 5  STLFVRNLAFQTKQDDLTNFFSDVGPIKHAVVVTNPETGENRGYGFV 51

BLAST of MS022089 vs. ExPASy Swiss-Prot
Match: Q9GZT3 (SRA stem-loop-interacting RNA-binding protein, mitochondrial OS=Homo sapiens OX=9606 GN=SLIRP PE=1 SV=1)

HSP 1 Score: 47.4 bits (111), Expect = 7.9e-05
Identity = 20/45 (44.44%), Postives = 30/45 (66.67%), Query Frame = 0

Query: 25 FVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQ 70
          FV+ +P++  +SQL+E F+  G VRRC +   K +  HRG G+VQ
Sbjct: 22 FVRRIPWTAASSQLKEHFAQFGHVRRCILPFDKETGFHRGLGWVQ 66

BLAST of MS022089 vs. ExPASy Swiss-Prot
Match: Q5R8K3 (SRA stem-loop-interacting RNA-binding protein, mitochondrial OS=Pongo abelii OX=9601 GN=SLIRP PE=3 SV=1)

HSP 1 Score: 47.4 bits (111), Expect = 7.9e-05
Identity = 20/45 (44.44%), Postives = 30/45 (66.67%), Query Frame = 0

Query: 25 FVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQ 70
          FV+ +P++  +SQL+E F+  G VRRC +   K +  HRG G+VQ
Sbjct: 22 FVRRIPWTAASSQLKEHFAQFGHVRRCILPFDKETGFHRGLGWVQ 66

BLAST of MS022089 vs. ExPASy TrEMBL
Match: A0A6J1C5V7 (RNA-binding protein 28 isoform X1 OS=Momordica charantia OX=3673 GN=LOC111007662 PE=4 SV=1)

HSP 1 Score: 149.4 bits (376), Expect = 5.4e-33
Identity = 69/69 (100.00%), Postives = 69/69 (100.00%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60
          MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST
Sbjct: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60

Query: 61 EHRGFGFVQ 70
          EHRGFGFVQ
Sbjct: 61 EHRGFGFVQ 69

BLAST of MS022089 vs. ExPASy TrEMBL
Match: A0A6J1C2G5 (RNA-binding protein 28 isoform X2 OS=Momordica charantia OX=3673 GN=LOC111007662 PE=4 SV=1)

HSP 1 Score: 149.4 bits (376), Expect = 5.4e-33
Identity = 69/69 (100.00%), Postives = 69/69 (100.00%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60
          MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST
Sbjct: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60

Query: 61 EHRGFGFVQ 70
          EHRGFGFVQ
Sbjct: 61 EHRGFGFVQ 69

BLAST of MS022089 vs. ExPASy TrEMBL
Match: A0A6J1IG31 (RNA-binding protein 28 isoform X1 OS=Cucurbita maxima OX=3661 GN=LOC111474290 PE=4 SV=1)

HSP 1 Score: 136.7 bits (343), Expect = 3.6e-29
Identity = 64/70 (91.43%), Postives = 67/70 (95.71%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKG-AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60
          MGKNKR +DGG KG AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQ+GS
Sbjct: 1  MGKNKRFKDGGEKGAAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQRGS 60

Query: 61 TEHRGFGFVQ 70
          TEHRG+GFVQ
Sbjct: 61 TEHRGYGFVQ 70

BLAST of MS022089 vs. ExPASy TrEMBL
Match: A0A6J1IIK5 (RNA-binding protein 28 isoform X3 OS=Cucurbita maxima OX=3661 GN=LOC111474290 PE=4 SV=1)

HSP 1 Score: 136.7 bits (343), Expect = 3.6e-29
Identity = 64/70 (91.43%), Postives = 67/70 (95.71%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKG-AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60
          MGKNKR +DGG KG AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQ+GS
Sbjct: 1  MGKNKRFKDGGEKGAAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQRGS 60

Query: 61 TEHRGFGFVQ 70
          TEHRG+GFVQ
Sbjct: 61 TEHRGYGFVQ 70

BLAST of MS022089 vs. ExPASy TrEMBL
Match: A0A6J1IDH9 (RNA-binding protein 28 isoform X2 OS=Cucurbita maxima OX=3661 GN=LOC111474290 PE=4 SV=1)

HSP 1 Score: 136.7 bits (343), Expect = 3.6e-29
Identity = 64/70 (91.43%), Postives = 67/70 (95.71%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKG-AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGS 60
          MGKNKR +DGG KG AAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQ+GS
Sbjct: 1  MGKNKRFKDGGEKGAAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQRGS 60

Query: 61 TEHRGFGFVQ 70
          TEHRG+GFVQ
Sbjct: 61 TEHRGYGFVQ 70

BLAST of MS022089 vs. TAIR 10
Match: AT2G21440.1 (RNA-binding (RRM/RBD/RNP motifs) family protein )

HSP 1 Score: 87.8 bits (216), Expect = 3.7e-18
Identity = 43/69 (62.32%), Postives = 49/69 (71.01%), Query Frame = 0

Query: 1  MGKNKRIRDGGGKGAAGDHCPSKVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGST 60
          MGKNKR R  G +     H  + V V  LPYS TN+QLEE FS+VGPVRRCF+VT KGS 
Sbjct: 1  MGKNKRERKDGEE--KSPHAAATVCVSGLPYSITNAQLEEAFSEVGPVRRCFLVTNKGSD 60

Query: 61 EHRGFGFVQ 70
          EHRGF FV+
Sbjct: 61 EHRGFAFVK 67

BLAST of MS022089 vs. TAIR 10
Match: AT3G52380.1 (chloroplast RNA-binding protein 33 )

HSP 1 Score: 44.3 bits (103), Expect = 4.7e-05
Identity = 19/48 (39.58%), Postives = 30/48 (62.50%), Query Frame = 0

Query: 23  KVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQL 71
           +++V NLPY+ T+S+L + F + G V    +V  K +   RGFGFV +
Sbjct: 117 RLYVGNLPYTITSSELSQIFGEAGTVVDVQIVYDKVTDRSRGFGFVTM 164

BLAST of MS022089 vs. TAIR 10
Match: AT1G71800.1 (cleavage stimulating factor 64 )

HSP 1 Score: 43.9 bits (102), Expect = 6.2e-05
Identity = 19/46 (41.30%), Postives = 28/46 (60.87%), Query Frame = 0

Query: 24 VFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQ 70
          VFV N+PY  T  QL E   +VGPV    +VT + + + +G+GF +
Sbjct: 11 VFVGNIPYDATEEQLREICGEVGPVVSFRLVTDRETGKPKGYGFCE 56

BLAST of MS022089 vs. TAIR 10
Match: AT2G36660.1 (poly(A) binding protein 7 )

HSP 1 Score: 43.5 bits (101), Expect = 8.1e-05
Identity = 21/46 (45.65%), Postives = 29/46 (63.04%), Query Frame = 0

Query: 24  VFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQ 70
           VFVKNLP S TN+ L++ F   G +  C + T +   + RG+GFVQ
Sbjct: 114 VFVKNLPESVTNAVLQDMFKKFGNIVSCKVATLEDG-KSRGYGFVQ 158

BLAST of MS022089 vs. TAIR 10
Match: AT4G24770.1 (31-kDa RNA binding protein )

HSP 1 Score: 42.7 bits (99), Expect = 1.4e-04
Identity = 19/48 (39.58%), Postives = 29/48 (60.42%), Query Frame = 0

Query: 23  KVFVKNLPYSFTNSQLEETFSDVGPVRRCFMVTQKGSTEHRGFGFVQL 71
           +V+V NLP+   N +LE+ FS+ G V    +V  + +   RGFGFV +
Sbjct: 245 RVYVGNLPWDVDNGRLEQLFSEHGKVVEARVVYDRETGRSRGFGFVTM 292

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
XP_022135783.11.1e-32100.00RNA-binding protein 28 isoform X1 [Momordica charantia][more]
XP_022135784.11.1e-32100.00RNA-binding protein 28 isoform X2 [Momordica charantia][more]
XP_038888249.18.9e-3094.29RNA-binding protein 28 [Benincasa hispida][more]
KAG7011721.13.4e-2992.86RNA-binding protein 28, partial [Cucurbita argyrosperma subsp. argyrosperma][more]
XP_023511705.13.4e-2992.86RNA-binding protein 28 [Cucurbita pepo subsp. pepo][more]
Match NameE-valueIdentityDescription
Q9NW139.0e-0960.00RNA-binding protein 28 OS=Homo sapiens OX=9606 GN=RBM28 PE=1 SV=3[more]
Q8CGC69.0e-0960.00RNA-binding protein 28 OS=Mus musculus OX=10090 GN=Rbm28 PE=1 SV=4[more]
O744006.0e-0542.55Uncharacterized RNA-binding protein C4F6.14 OS=Schizosaccharomyces pombe (strain... [more]
Q9GZT37.9e-0544.44SRA stem-loop-interacting RNA-binding protein, mitochondrial OS=Homo sapiens OX=... [more]
Q5R8K37.9e-0544.44SRA stem-loop-interacting RNA-binding protein, mitochondrial OS=Pongo abelii OX=... [more]
Match NameE-valueIdentityDescription
A0A6J1C5V75.4e-33100.00RNA-binding protein 28 isoform X1 OS=Momordica charantia OX=3673 GN=LOC111007662... [more]
A0A6J1C2G55.4e-33100.00RNA-binding protein 28 isoform X2 OS=Momordica charantia OX=3673 GN=LOC111007662... [more]
A0A6J1IG313.6e-2991.43RNA-binding protein 28 isoform X1 OS=Cucurbita maxima OX=3661 GN=LOC111474290 PE... [more]
A0A6J1IIK53.6e-2991.43RNA-binding protein 28 isoform X3 OS=Cucurbita maxima OX=3661 GN=LOC111474290 PE... [more]
A0A6J1IDH93.6e-2991.43RNA-binding protein 28 isoform X2 OS=Cucurbita maxima OX=3661 GN=LOC111474290 PE... [more]
Match NameE-valueIdentityDescription
AT2G21440.13.7e-1862.32RNA-binding (RRM/RBD/RNP motifs) family protein [more]
AT3G52380.14.7e-0539.58chloroplast RNA-binding protein 33 [more]
AT1G71800.16.2e-0541.30cleavage stimulating factor 64 [more]
AT2G36660.18.1e-0545.65poly(A) binding protein 7 [more]
AT4G24770.11.4e-0439.5831-kDa RNA binding protein [more]
InterPro
Analysis Name: InterPro Annotations of Bitter gourd (TR) v1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR012677Nucleotide-binding alpha-beta plait domain superfamilyGENE3D3.30.70.330coord: 21..69
e-value: 9.3E-16
score: 59.7
IPR000504RNA recognition motif domainPFAMPF00076RRM_1coord: 24..69
e-value: 2.6E-12
score: 46.4
IPR000504RNA recognition motif domainPROSITEPS50102RRMcoord: 22..70
score: 12.116895
NoneNo IPR availablePANTHERPTHR24012:SF759POLYADENYLATE-BINDING PROTEIN 6coord: 22..69
NoneNo IPR availablePANTHERPTHR24012RNA BINDING PROTEINcoord: 22..69
IPR035979RNA-binding domain superfamilySUPERFAMILY54928RNA-binding domain, RBDcoord: 16..69

Relationships

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

Feature NameUnique NameType
MS022089.1MS022089.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0003676 nucleic acid binding