MDP0000628982, MDP0000628982 (mRNA) Malus spp. (apple)

Transcript Overview


Name	MDP0000628982
Unique Name	MDP0000628982
Type	mRNA
Organism	Malus x domestica (Apple)
Sequence length	1816

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
chr11	chromosome	chr11:7906193..7908008 -	Malus x domestica Whole Genome v1.0 Assembly & Annotation	n/a
MDC003381.263	contig	MDC003381.263:28916..30731 -	Malus x domestica Whole Genome v1.0 Assembly & Annotation	n/a

Analyses

This mRNA is derived from or has results from the following analyses


Analysis Name	Date Performed
Malus x domestica Whole Genome v1.0 Assembly & Annotation	2012-07-26
InterProScan of Malus x domestica Whole Genome v1.0 mRNA	2012-07-23
KEGG/KAAS of Malus x domestica Whole Genome v1.0	2012-04-02

Relationships

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


Feature Name	Unique Name	Species	Type
MDP0000628982_exon_1	MDP0000628982_exon_1	Malus x domestica	CDS
MDP0000628982_exon_2	MDP0000628982_exon_2	Malus x domestica	CDS

InterPro

Analysis Name: InterProScan of Malus x domestica Whole Genome v1.0 mRNA
Date Performed: 2012-07-23


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR000504	RNA recognition motif domain	PFAM	PF00076	RRM_1	coord: 214..280 score: 5.6
IPR000504	RNA recognition motif domain	SMART	SM00360	RNA recognition motif	coord: 213..286 score: 1.8
IPR000504	RNA recognition motif domain	PROFILE	PS50102	RRM	coord: 212..290 score: 18
IPR012677	Nucleotide-binding, alpha-beta plait	GENE3D	3.30.70.330	no description	coord: 203..291 score: 6.9
IPR017334	Translation initiation factor 3, subunit G	PIR	PIRSF037949	Translation initiation factor 3, RNA-binding subunit	coord: 1..293 score: 1.6
IPR017334	Translation initiation factor 3, subunit G	PANTHER	PTHR10352	EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT G	coord: 12..293 score: 1.8e
IPR024675	Eukaryotic translation initiation factor 3 subunit G, N-terminal	PFAM	PF12353	eIF3g	coord: 33..164 score: 6
None	No IPR available	SEG	seg	seg	coord: 18..32 score
None	No IPR available	SUPERFAMILY	54928	RNA-binding domain, RBD	coord: 175..293 score: 6.6
None	No IPR available	SEG	seg	seg	coord: 12..30 score: NAcoord: 39..52 score
None	No IPR available	SEG	seg	seg	coord: 29..39 score
None	No IPR available	SEG	seg	seg	coord: 7..21 score: NAcoord: 34..47 score
None	No IPR available	SEG	seg	seg	coord: 101..118 score

Sequences

The following sequences are available for this feature:

mRNA sequence
mRNA from alignment at chr11:7906193..7908008-
mRNA from alignment at MDC003381.263:28916..30731-
coding sequence from alignment at MDC003381.263:28916..30731-

mRNA sequence

>MDP0000628982 ID=MDP0000628982; Name=MDP0000628982; organism=Malus x domestica; type=mRNA; length=1816bp
ATGGCTCTAGTGAGACCCGGATCCGGAAACCAACCCCCAAAGCTCCGATG
GGGAGAGCTCGAGGAGGACGACGGTGAAGACCTCGACTTTCTCCTGCCGC
CGAGGCAAGTGATTGGGCCCGACGAGGACGGGATCAAGAGGGTGATCGAA
TACAAGTTCAACGAGAATGGAAATAAGGTCAARATGACGACCATTACCCG
GGTTCGGAGACTCGCCCAGGCCCGGCTCAGTAAGCGGGCCGTGGAGCGCC
GCTCCTGGCCCAAGTTCGGGGACGCCGTGCACGAGGACGTCGGTGCTAGG
CTCACCGTGGTCTCCACCGAAGAGATCTTCCTCGAGCGCCCCAGGGCTCC
TGGTAAGCTTTTGAATTCTTCTTTTCGGGGTTTCGGTATTAGGGTTTTTA
ATTTCGGATTTTGAGGAAGATTATATGGAATTTGTGTGAAAAACTACATT
TGGCTAATTTGGAATATTTCCCATGAGATTTTGATCATATATTYCTCTGT
TAGTATTTGCGATAGACATCTATTAATCCTTTAGATTAAATTTTGTCTAA
ATAAAKTTTTGCAATTGGAATAAATGAAGCTAAAATTGAATTGTATTTGT
TTTATTTTGTTGTTTGGAGGAAGGAGAGTGGAATTTTAAATGGTCGATAC
GAATAACCTAACCATTACTCCCTTGCTTTTATCTTGTTTAATGGAAATGT
CTGTTTGAGGCAATTGCTATGTCTGAATGAACAATGCTGGCTTGGTGCAT
GAGTCGGTAGACTGTCTAGCTGACCATCGRGATTGGTTTAAATCTTATAA
CTTCGTACGGACACGTTTGCATGTCTAGTTATACGATGTAGATTTCTAAC
YYGAGATTGTGAGTATGTTTAGTTTAAATCTTATAACGTCATCTGGTTCC
ATGCTCGAATCCCCTAATTAGGTTTGTGGAGAGGTTAAAGGTTGTTTTAG
TCAAGAGGCCTACTGTTATTATGGTTACTTTCTCGGATATGATATAGTTC
AAATTTGTTGGATCAGTTTGATTTTTGAAGTTACCTTCACTGGCCATGTG
ATTTTGTTTTGTGGATGATGCATTGTTGACATGGGGGAAAATAGAGGAAC
TATTTGTTGATGCCCTCATATATCGCATTGCATCTGCGGCTTCTCTGTTA
TGTCTTTTGTCAGAGATTTGTTTGATTTTCTCTTGATATAGAATAGATTT
ATTTGYTATCAGTCGATGCCAATTGGTCATGGTAACTGGTATGTTGGGTT
TTCTGATTATTTTTTTCTGTATATGACTGTGAACAGGTAGCAAAGCAGAA
GAACCAAAGGCTGGAGGAGAYCCTCTGTCTCAACTCACAAAAGGAGGGGC
TGCTCTCAAACTATGTAGGACTTGTGGTAAGAAGGGTGATCACTGGACTT
CACATTGCCCGTATAAGGATCTCGCCCCACCRAMTGAAGGATTTAGTGAT
AAACCTCCTACATCAGAAGTAGTGCCTGGAACTCCTAGCACAGGTAAGTA
TGTTCCTCCAGTCCAGAGAGGAGGTGGAGACAGAGTTGGAAGTGATATGA
GACGAAGGAATGATGAGAACTCTGTTCGTGTCACCAACCTTTCAGAGGAC
ACWCGTGAGCCTGACTTGCTTGAACTTTTCCGGCCTTTTGGTGCTGTTAG
CCGTGTTTACGTTGCTTTGGATAAGAATACTTCCGTTAGCAGAGGATTTG
GTTTCGTCAACTTTGTGAACAGGGAAGATGCCCAGAGAGCAATCAACAAA
CTGAACGGGTACGGTTATGACAATCTCATCCTCAGGGTTGAATGGGCTAC
ACCGAGGACAAATTAG

mRNA from alignment at chr11:7906193..7908008-

Legend: CDS

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

>MDP0000628982 ID=MDP0000628982; Name=MDP0000628982; organism=Malus x domestica; type=mRNA; location=Sequence derived from: chr11:7906193..7908008- (Malus x domestica

mRNA from alignment at MDC003381.263:28916..30731-

Legend: CDS

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

>MDP0000628982 ID=MDP0000628982; Name=MDP0000628982; organism=Malus x domestica; type=mRNA; length=1816bp; location=Sequence derived from: MDC003381.263:28916..30731- (Malus x domestica
ATGGCTCTAGTGAGACCCGGATCCGGAAACCAACCCCCAAAGCTCCGATG
GGGAGAGCTCGAGGAGGACGACGGTGAAGACCTCGACTTTCTCCTGCCGC
CGAGGCAAGTGATTGGGCCCGACGAGGACGGGATCAAGAGGGTGATCGAA
TACAAGTTCAACGAGAATGGAAATAAGGTCAARATGACGACCATTACCCG
GGTTCGGAGACTCGCCCAGGCCCGGCTCAGTAAGCGGGCCGTGGAGCGCC
GCTCCTGGCCCAAGTTCGGGGACGCCGTGCACGAGGACGTCGGTGCTAGG
CTCACCGTGGTCTCCACCGAAGAGATCTTCCTCGAGCGCCCCAGGGCTCC
TGGTAAGCTTTTGAATTCTTCTTTTCGGGGTTTCGGTATTAGGGTTTTTA
ATTTCGGATTTTGAGGAAGATTATATGGAATTTGTGTGAAAAACTACATT
TGGCTAATTTGGAATATTTCCCATGAGATTTTGATCATATATTYCTCTGT
TAGTATTTGCGATAGACATCTATTAATCCTTTAGATTAAATTTTGTCTAA
ATAAAKTTTTGCAATTGGAATAAATGAAGCTAAAATTGAATTGTATTTGT
TTTATTTTGTTGTTTGGAGGAAGGAGAGTGGAATTTTAAATGGTCGATAC
GAATAACCTAACCATTACTCCCTTGCTTTTATCTTGTTTAATGGAAATGT
CTGTTTGAGGCAATTGCTATGTCTGAATGAACAATGCTGGCTTGGTGCAT
GAGTCGGTAGACTGTCTAGCTGACCATCGRGATTGGTTTAAATCTTATAA
CTTCGTACGGACACGTTTGCATGTCTAGTTATACGATGTAGATTTCTAAC
YYGAGATTGTGAGTATGTTTAGTTTAAATCTTATAACGTCATCTGGTTCC
ATGCTCGAATCCCCTAATTAGGTTTGTGGAGAGGTTAAAGGTTGTTTTAG
TCAAGAGGCCTACTGTTATTATGGTTACTTTCTCGGATATGATATAGTTC
AAATTTGTTGGATCAGTTTGATTTTTGAAGTTACCTTCACTGGCCATGTG
ATTTTGTTTTGTGGATGATGCATTGTTGACATGGGGGAAAATAGAGGAAC
TATTTGTTGATGCCCTCATATATCGCATTGCATCTGCGGCTTCTCTGTTA
TGTCTTTTGTCAGAGATTTGTTTGATTTTCTCTTGATATAGAATAGATTT
ATTTGYTATCAGTCGATGCCAATTGGTCATGGTAACTGGTATGTTGGGTT
TTCTGATTATTTTTTTCTGTATATGACTGTGAACAGGTAGCAAAGCAGAA
GAACCAAAGGCTGGAGGAGAYCCTCTGTCTCAACTCACAAAAGGAGGGGC
TGCTCTCAAACTATGTAGGACTTGTGGTAAGAAGGGTGATCACTGGACTT
CACATTGCCCGTATAAGGATCTCGCCCCACCRAMTGAAGGATTTAGTGAT
AAACCTCCTACATCAGAAGTAGTGCCTGGAACTCCTAGCACAGGTAAGTA
TGTTCCTCCAGTCCAGAGAGGAGGTGGAGACAGAGTTGGAAGTGATATGA
GACGAAGGAATGATGAGAACTCTGTTCGTGTCACCAACCTTTCAGAGGAC
ACWCGTGAGCCTGACTTGCTTGAACTTTTCCGGCCTTTTGGTGCTGTTAG
CCGTGTTTACGTTGCTTTGGATAAGAATACTTCCGTTAGCAGAGGATTTG
GTTTCGTCAACTTTGTGAACAGGGAAGATGCCCAGAGAGCAATCAACAAA
CTGAACGGGTACGGTTATGACAATCTCATCCTCAGGGTTGAATGGGCTAC
ACCGAGGACAAATTAG

Coding sequence (CDS) from alignment at MDC003381.263:28916..30731-

>MDP0000628982 ID=MDP0000628982; Name=MDP0000628982; organism=Malus x domestica; type=CDS; length=882bp; location=Sequence derived from: MDC003381.263:28916..30731- (Malus x domestica
ATGGCTCTAGTGAGACCCGGATCCGGAAACCAACCCCCAAAGCTCCGATG
GGGAGAGCTCGAGGAGGACGACGGTGAAGACCTCGACTTTCTCCTGCCGC
CGAGGCAAGTGATTGGGCCCGACGAGGACGGGATCAAGAGGGTGATCGAA
TACAAGTTCAACGAGAATGGAAATAAGGTCAARATGACGACCATTACCCG
GGTTCGGAGACTCGCCCAGGCCCGGCTCAGTAAGCGGGCCGTGGAGCGCC
GCTCCTGGCCCAAGTTCGGGGACGCCGTGCACGAGGACGTCGGTGCTAGG
CTCACCGTGGTCTCCACCGAAGAGATCTTCCTCGAGCGCCCCAGGGCTCC
TGGTAGCAAAGCAGAAGAACCAAAGGCTGGAGGAGAYCCTCTGTCTCAAC
TCACAAAAGGAGGGGCTGCTCTCAAACTATGTAGGACTTGTGGTAAGAAG
GGTGATCACTGGACTTCACATTGCCCGTATAAGGATCTCGCCCCACCRAM
TGAAGGATTTAGTGATAAACCTCCTACATCAGAAGTAGTGCCTGGAACTC
CTAGCACAGGTAAGTATGTTCCTCCAGTCCAGAGAGGAGGTGGAGACAGA
GTTGGAAGTGATATGAGACGAAGGAATGATGAGAACTCTGTTCGTGTCAC
CAACCTTTCAGAGGACACWCGTGAGCCTGACTTGCTTGAACTTTTCCGGC
CTTTTGGTGCTGTTAGCCGTGTTTACGTTGCTTTGGATAAGAATACTTCC
GTTAGCAGAGGATTTGGTTTCGTCAACTTTGTGAACAGGGAAGATGCCCA
GAGAGCAATCAACAAACTGAACGGGTACGGTTATGACAATCTCATCCTCA
GGGTTGAATGGGCTACACCGAGGACAAATTAG

Annotated Terms

The following terms have been associated with this mRNA:

Vocabulary: **INTERPRO**
Term	Definition
IPR000504	RRM_dom
IPR012677	Nucleotide-bd_a/b_plait_sf
IPR017334	eIF3_g
IPR024675	eIF3g_N

Vocabulary: **Molecular Function**
Term	Definition
GO:0003676	nucleic acid binding
GO:0000166	nucleotide binding