Spo12253.1 (mRNA) | SpinachBase

Overview


Name	Spo12253.1
Type	mRNA
Organism	Spinacia oleracea (Spinach)
Description	rRNA intron-encoded homing endonuclease
Location	SpoScf_26012 : 191 .. 754 (+)
Sequence length	462

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

AAAAAGCTCGTAGTTGGACCTTGGGGTGGTACGACCGGTCCGCCTTTTGGTGTGCACCGGCCGTCTCGCCTCTTTCGCCGGCGATGCGCTCCTGGCCTTAATTGGCCGGGTCGTGCCTCCGGCACTGTTACTTTGAAGAAATTAGAGTGCTCAAAGCAAGCCTACGCTCTGTATACATTAGCATGGGATAACATTATAGGATTCCGGTCCTATTGTGTTGGCCTTCGGGATCGGAGTAATGATTAACAGGGACAGTCGGGGGCATTCGTATTTCATAGTCAGAGGTGAAATTCTTGGATTTATGAAAGACGAAAAACTGCGAAAGCATTTGCCAAGGATGTTTTCATTAATCAAGAACGAAAATTGGGGGCTCGAAGACGATCAGATACCGTCCTAGTCTCAACCATAAACGATGCCGACCAGGGATCGGCGGATGTTACTTTTAGGACGCCGCCGGCACCTTATGAGAAATCAAAGTTTTTGGGTTCCGGGGGGAGTATGGTCGCAAGGCTGAAACTTAAAGGAATTGACGGAAGGGCACCACCAGGAGTGGAGCCTGCGGCT

mRNA sequence

AAAAAGCTCGTAGTTGGACCTTGGGGTGGTACGACCGGTCCGCCTTTTGGTGTGCACCGGCCGTCTCGCCTCTTTCGCCGGCGATGCGCTCCTGGCCTTAATTGGCCGGGTCGTGCCTCCGGCACTGTTACTTTGAAGAAATTAGAGTGCTCAAAGCAAGCCTACGCTCTGTATACATTAGCATGGGATAACATTATAGGATTCCGACGAAAAACTGCGAAAGCATTTGCCAAGGATGTTTTCATTAATCAAGAACGAAAATTGGGGGCTCGAAGACGATCAGATACCGTCCTAGTCTCAACCATAAACGATGCCGACCAGGGATCGGCGGATGTTACTTTTAGGACGCCGCCGGCACCTTATGAGAAATCAAAGTTTTTGGGTTCCGGGGGGAGTATGGTCGCAAGGCTGAAACTTAAAGGAATTGACGGAAGGGCACCACCAGGAGTGGAGCCTGCGGCT

Coding sequence (CDS)

AAAAAGCTCGTAGTTGGACCTTGGGGTGGTACGACCGGTCCGCCTTTTGGTGTGCACCGGCCGTCTCGCCTCTTTCGCCGGCGATGCGCTCCTGGCCTTAATTGGCCGGGTCGTGCCTCCGGCACTGTTACTTTGAAGAAATTAGAGTGCTCAAAGCAAGCCTACGCTCTGTATACATTAGCATGGGATAACATTATAGGATTCCGACGAAAAACTGCGAAAGCATTTGCCAAGGATGTTTTCATTAATCAAGAACGAAAATTGGGGGCTCGAAGACGATCAGATACCGTCCTAGTCTCAACCATAAACGATGCCGACCAGGGATCGGCGGATGTTACTTTTAGGACGCCGCCGGCACCTTATGAGAAATCAAAGTTTTTGGGTTCCGGGGGGAGTATGGTCGCAAGGCTGAAACTTAAAGGAATTGACGGAAGGGCACCACCAGGAGTGGAGCCTGCGGCT

Protein sequence

KKLVVGPWGGTTGPPFGVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWDNIIGFRRKTAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGGSMVARLKLKGIDGRAPPGVEPAA

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
Spo12253	Spo12253	gene

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
Spo12253.1	Spo12253.1-protein	polypeptide

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


Feature Name	Unique Name	Type
Spo12253.1.exon.1	Spo12253.1.exon.1	exon
Spo12253.1.exon.2	Spo12253.1.exon.2	exon

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


Feature Name	Unique Name	Type
Spo12253.1.CDS.1	Spo12253.1.CDS.1	CDS
Spo12253.1.CDS.2	Spo12253.1.CDS.2	CDS

Homology

[Close]

BLAST of Spo12253.1 vs. NCBI nr
Match: gi|703137890|ref|XP_010106597.1| (hypothetical protein L484_002552 [Morus notabilis])

HSP 1 Score: 261.9 bits (668), Expect = 6.900e-67
Identity = 130/138 (94.20%), Postives = 131/138 (94.93%), Query Frame = 1


		  
Query: 17  GVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWDNIIGFRRKTAKAF 76
           GVHR +R F RRCAPGLNWPGRASG VTLKKLECSKQAYALYTLAWDNIIGFRR TAKAF
Sbjct: 55  GVHRSARPFCRRCAPGLNWPGRASGAVTLKKLECSKQAYALYTLAWDNIIGFRRTTAKAF 114

Query: 77  AKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGGSMVAR 136
           AKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTP APYEKSKFLGSGGSMVAR
Sbjct: 115 AKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPLAPYEKSKFLGSGGSMVAR 174

Query: 137 LKLKGIDGRAPPGVEPAA 155
           LKLKGIDGRAPPGVEPAA
Sbjct: 175 LKLKGIDGRAPPGVEPAA 192

[Close]

BLAST of Spo12253.1 vs. NCBI nr
Match: gi|823127874|ref|XP_012440607.1| (PREDICTED: uncharacterized protein LOC105765883 [Gossypium raimondii])

HSP 1 Score: 224.6 bits (571), Expect = 1.200e-55
Identity = 116/151 (76.82%), Postives = 121/151 (80.13%), Query Frame = 1


		  
Query: 1   KKLVVGPWGGTTGPPFGVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTL 60
           KKLVVG  GG+ GPP G HR +R + RRCAPGLNWPGR+S  VTLKKLECSKQAYA    
Sbjct: 41  KKLVVGLRGGSAGPPHGEHRSARPYCRRCAPGLNWPGRSSDAVTLKKLECSKQAYA---- 100

Query: 61  AWDNIIGFRRKTAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAP 120
                         +FAKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTPPAP
Sbjct: 101 --------------SFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPPAP 160

Query: 121 YEKSKFLGSGGSMVARLKLKGIDGRAPPGVE 152
           YEKSK LGSGGSMVARLKLKGIDGRAPPGVE
Sbjct: 161 YEKSKSLGSGGSMVARLKLKGIDGRAPPGVE 173

[Close]

BLAST of Spo12253.1 vs. NCBI nr
Match: gi|694380941|ref|XP_009366572.1| (PREDICTED: uncharacterized protein LOC103956333 [Pyrus x bretschneideri])

HSP 1 Score: 222.2 bits (565), Expect = 6.100e-55
Identity = 117/142 (82.39%), Postives = 120/142 (84.51%), Query Frame = 1


		  
Query: 17  GVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWD-----NIIGFRRK 76
           GVHR +R F RR APGLNWPGRASG VTLKKLECSKQ +    LA+      N     R 
Sbjct: 228 GVHRSARPFCRRYAPGLNWPGRASGAVTLKKLECSKQDFGPILLAFGIGVMINRDSRGRT 287

Query: 77  TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGG 136
           TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGG
Sbjct: 288 TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGG 347

Query: 137 SMVARLKLKGIDGRAPPGVEPA 154
           SMVARLKLKGIDGRAPPGVEPA
Sbjct: 348 SMVARLKLKGIDGRAPPGVEPA 369

[Close]

BLAST of Spo12253.1 vs. NCBI nr
Match: gi|922327155|ref|XP_013442970.1| (hypothetical protein MTR_0055s0130 [Medicago truncatula])

HSP 1 Score: 215.7 bits (548), Expect = 5.700e-53
Identity = 115/143 (80.42%), Postives = 118/143 (82.52%), Query Frame = 1


		  
Query: 16  FGVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWD-----NIIGFRR 75
           +GVHR +R F RRCAPGLNWPGRASG VTLKKLECSKQ      LA+      N     R
Sbjct: 485 YGVHRLARPFCRRCAPGLNWPGRASGAVTLKKLECSKQDSDPIVLAFGIGVMINRDSRGR 544

Query: 76  KTAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSG 135
            TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTP APYEKSK LGSG
Sbjct: 545 TTAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPLAPYEKSKSLGSG 604

Query: 136 GSMVARLKLKGIDGRAPPGVEPA 154
           GSMVARLKLKGIDGRAPPGVEPA
Sbjct: 605 GSMVARLKLKGIDGRAPPGVEPA 627

[Close]

BLAST of Spo12253.1 vs. NCBI nr
Match: gi|947068904|gb|KRH17795.1| (hypothetical protein GLYMA_13G016700 [Glycine max])

HSP 1 Score: 213.0 bits (541), Expect = 3.700e-52
Identity = 115/143 (80.42%), Postives = 117/143 (81.82%), Query Frame = 1


		  
Query: 17  GVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWD-----NIIGFRRK 76
           GVHR +R F RRCAP LNWPGRASG VTLKKLECSKQ      LA+      N     R 
Sbjct: 128 GVHRSARPFCRRCAPVLNWPGRASGAVTLKKLECSKQDSDPIVLAFGIGVMINRDSRGRT 187

Query: 77  TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGG 136
           TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTP APYEKSK LGSGG
Sbjct: 188 TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPLAPYEKSKSLGSGG 247

Query: 137 SMVARLKLKGIDGRAPPGVEPAA 155
           SMVARLKLKGIDGRAPPGVEPAA
Sbjct: 248 SMVARLKLKGIDGRAPPGVEPAA 270

[Close]

BLAST of Spo12253.1 vs. UniProtKB/TrEMBL
Match: M1DUP9_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400044276 PE=4 SV=1)

HSP 1 Score: 265.0 bits (676), Expect = 5.700e-68
Identity = 132/141 (93.62%), Postives = 132/141 (93.62%), Query Frame = 1


		  
Query: 14  PPFGVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWDNIIGFRRKTA 73
           P   VHR SR F RRCAPGLNWPGRASG VTLKKLECSKQAYALYTLAWDNIIGFRR TA
Sbjct: 45  PCICVHRSSRPFCRRCAPGLNWPGRASGAVTLKKLECSKQAYALYTLAWDNIIGFRRTTA 104

Query: 74  KAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGGSM 133
           KAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTPPAPYEKSKFLGSGGSM
Sbjct: 105 KAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPPAPYEKSKFLGSGGSM 164

Query: 134 VARLKLKGIDGRAPPGVEPAA 155
           VARLKLKGIDGRAPPGVEPAA
Sbjct: 165 VARLKLKGIDGRAPPGVEPAA 185

[Close]

BLAST of Spo12253.1 vs. UniProtKB/TrEMBL
Match: W9SJ11_9ROSA (Uncharacterized protein OS=Morus notabilis GN=L484_002552 PE=4 SV=1)

HSP 1 Score: 261.9 bits (668), Expect = 4.800e-67
Identity = 130/138 (94.20%), Postives = 131/138 (94.93%), Query Frame = 1


		  
Query: 17  GVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWDNIIGFRRKTAKAF 76
           GVHR +R F RRCAPGLNWPGRASG VTLKKLECSKQAYALYTLAWDNIIGFRR TAKAF
Sbjct: 55  GVHRSARPFCRRCAPGLNWPGRASGAVTLKKLECSKQAYALYTLAWDNIIGFRRTTAKAF 114

Query: 77  AKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGGSMVAR 136
           AKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTP APYEKSKFLGSGGSMVAR
Sbjct: 115 AKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPLAPYEKSKFLGSGGSMVAR 174

Query: 137 LKLKGIDGRAPPGVEPAA 155
           LKLKGIDGRAPPGVEPAA
Sbjct: 175 LKLKGIDGRAPPGVEPAA 192

[Close]

BLAST of Spo12253.1 vs. UniProtKB/TrEMBL
Match: M1DB49_SOLTU (Uncharacterized protein OS=Solanum tuberosum GN=PGSC0003DMG400035737 PE=4 SV=1)

HSP 1 Score: 249.2 bits (635), Expect = 3.200e-63
Identity = 123/130 (94.62%), Postives = 125/130 (96.15%), Query Frame = 1


		  
Query: 25  FRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWDNIIGFRRKTAKAFAKDVFINQ 84
           F RRCAPGLNWPGRASG VTLKKLECSKQAYALYTLAWDNIIGFRR TAKAFAKDVFINQ
Sbjct: 5   FCRRCAPGLNWPGRASGAVTLKKLECSKQAYALYTLAWDNIIGFRRTTAKAFAKDVFINQ 64

Query: 85  ERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGGSMVARLKLKGIDG 144
           ERKLGARRRSDTVLVSTINDADQGSADV FRTPPAPYEKSKFLGSGGS+VARLKLKGIDG
Sbjct: 65  ERKLGARRRSDTVLVSTINDADQGSADVAFRTPPAPYEKSKFLGSGGSIVARLKLKGIDG 124

Query: 145 RAPPGVEPAA 155
           +APPGVE AA
Sbjct: 125 KAPPGVELAA 134

[Close]

BLAST of Spo12253.1 vs. UniProtKB/TrEMBL
Match: A0A0D2ZQ67_BRAOL (Uncharacterized protein OS=Brassica oleracea var. oleracea PE=4 SV=1)

HSP 1 Score: 234.2 bits (596), Expect = 1.100e-58
Identity = 120/142 (84.51%), Postives = 124/142 (87.32%), Query Frame = 1


		  
Query: 17  GVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWDNIIGFRRKTA--- 76
           G+HR +  F R+ APGLNWPGRASG VTLKKLECSKQAY LYTLAWDNIIGF    A   
Sbjct: 189 GMHRSACPFCRQYAPGLNWPGRASGAVTLKKLECSKQAYTLYTLAWDNIIGFLSYCAGLQ 248

Query: 77  -KAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSGGS 136
            + FAKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTP APYEKSKFLGSGGS
Sbjct: 249 DRTFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPLAPYEKSKFLGSGGS 308

Query: 137 MVARLKLKGIDGRAPPGVEPAA 155
           MVARLKLKGIDGRAPPGVEPAA
Sbjct: 309 MVARLKLKGIDGRAPPGVEPAA 330

[Close]

BLAST of Spo12253.1 vs. UniProtKB/TrEMBL
Match: A0A072TTW7_MEDTR (Uncharacterized protein OS=Medicago truncatula GN=MTR_0055s0130 PE=4 SV=1)

HSP 1 Score: 215.7 bits (548), Expect = 4.000e-53
Identity = 115/143 (80.42%), Postives = 118/143 (82.52%), Query Frame = 1


		  
Query: 16  FGVHRPSRLFRRRCAPGLNWPGRASGTVTLKKLECSKQAYALYTLAWD-----NIIGFRR 75
           +GVHR +R F RRCAPGLNWPGRASG VTLKKLECSKQ      LA+      N     R
Sbjct: 485 YGVHRLARPFCRRCAPGLNWPGRASGAVTLKKLECSKQDSDPIVLAFGIGVMINRDSRGR 544

Query: 76  KTAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVTFRTPPAPYEKSKFLGSG 135
            TAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADV FRTP APYEKSK LGSG
Sbjct: 545 TTAKAFAKDVFINQERKLGARRRSDTVLVSTINDADQGSADVAFRTPLAPYEKSKSLGSG 604

Query: 136 GSMVARLKLKGIDGRAPPGVEPA 154
           GSMVARLKLKGIDGRAPPGVEPA
Sbjct: 605 GSMVARLKLKGIDGRAPPGVEPA 627

The following BLAST results are available for this feature:

BLAST of Spo12253.1 vs. NCBI nr
BLAST of Spo12253.1 vs. UniProtKB/TrEMBL
BLAST of Spo12253.1 vs. ExPASy Swiss-Prot
BLAST of Spo12253.1 vs. TAIR (Arabidopsis)

BLAST of Spo12253.1 vs. NCBI nr
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. NCBI nr)
Total hits: 5


Match Name	E-value	Identity	Description
gi\|703137890\|ref\|XP_010106597.1\|	6.9e-67	94.2	hypothetical protein L484_0025...	[more]
gi\|823127874\|ref\|XP_012440607.1\|	1.2e-55	76.8	PREDICTED: uncharacterized pro...	[more]
gi\|694380941\|ref\|XP_009366572.1\|	6.1e-55	82.3	PREDICTED: uncharacterized pro...	[more]
gi\|922327155\|ref\|XP_013442970.1\|	5.7e-53	80.4	hypothetical protein MTR_0055s...	[more]
gi\|947068904\|gb\|KRH17795.1\|	3.7e-52	80.4	hypothetical protein GLYMA_13G...	[more]

BLAST of Spo12253.1 vs. UniProtKB/TrEMBL
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. UniprotKB/TrEMBL)
Total hits: 5


Match Name	E-value	Identity	Description
M1DUP9_SOLTU	5.7e-68	93.6	Uncharacterized protein OS=Sol...	[more]
W9SJ11_9ROSA	4.8e-67	94.2	Uncharacterized protein OS=Mor...	[more]
M1DB49_SOLTU	3.2e-63	94.6	Uncharacterized protein OS=Sol...	[more]
A0A0D2ZQ67_BRAOL	1.1e-58	84.5	Uncharacterized protein OS=Bra...	[more]
A0A072TTW7_MEDTR	4.0e-53	80.4	Uncharacterized protein OS=Med...	[more]

BLAST of Spo12253.1 vs. ExPASy Swiss-Prot
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. ExPASy SwissProt)
Total hits: 0


Match Name	E-value	Identity	Description

BLAST of Spo12253.1 vs. TAIR (Arabidopsis)
Analysis Date: 2018-06-29 (blastp Spinacia oleracea peptides vs. TAIR)
Total hits: 0


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterPro Annotations of S. oleracea
Date Performed: 2018-06-29


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR34410	FAMILY NOT NAMED	coord: 59..154 score: 8.9
None	No IPR available	PANTHER	PTHR34410:SF2	SUBFAMILY NOT NAMED	coord: 59..154 score: 8.9

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006506	GPI anchor biosynthetic process
biological_process	GO:0090305	nucleic acid phosphodiester bond hydrolysis
molecular_function	GO:0004519	endonuclease activity
molecular_function	GO:0016758	transferase activity, transferring hexosyl groups