MDP0000595333, MDP0000595333 (mRNA) Malus spp. (apple)

Transcript Overview


Name	MDP0000595333
Unique Name	MDP0000595333
Type	mRNA
Organism	Malus x domestica (Apple)
Sequence length	1429

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
chr7	chromosome	chr7:1423773..1425201 -	Malus x domestica Whole Genome v1.0 Assembly & Annotation	n/a
MDC017090.330	contig	MDC017090.330:1558..2986 -	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

Relationships

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


Feature Name	Unique Name	Species	Type
MDP0000595333_exon_1	MDP0000595333_exon_1	Malus x domestica	CDS
MDP0000595333_exon_2	MDP0000595333_exon_2	Malus x domestica	CDS
MDP0000595333_exon_3	MDP0000595333_exon_3	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
IPR002885	Pentatricopeptide repeat	PFAM	PF13041	PPR_2	coord: 21..69 score: 3.6
IPR002885	Pentatricopeptide repeat	PFAM	PF13812	PPR_3	coord: 94..121 score: 0
IPR002885	Pentatricopeptide repeat	TIGRFAMs	TIGR00756	PPR: pentatricopeptide repeat domain	coord: 24..57 score: 3.1e-06coord: 97..121 score: 0.
IPR002885	Pentatricopeptide repeat	PROFILE	PS51375	PPR	coord: 22..56 score: 10.468coord: 1..21 score: 6.182coord: 93..123 score: 7.717coord: 57..92 score: 7.443coord: 151..185 score: 6
None	No IPR available	PANTHER	PTHR24015	FAMILY NOT NAMED	coord: 1..317 score: 6.7e
None	No IPR available	PANTHER	PTHR24015:SF126	SUBFAMILY NOT NAMED	coord: 1..317 score: 6.7e
None	No IPR available	PFAM	PF14432	DYW_deaminase	coord: 202..311 score: 1.2
None	No IPR available	SEG	seg	seg	coord: 5..18 score

Sequences

The following sequences are available for this feature:

mRNA sequence
mRNA from alignment at chr7:1423773..1425201-
mRNA from alignment at MDC017090.330:1558..2986-
coding sequence from alignment at MDC017090.330:1558..2986-

mRNA sequence

>MDP0000595333 ID=MDP0000595333; Name=MDP0000595333; organism=Malus x domestica; type=mRNA; length=1429bp
ATGTATGCGAGATGCGGTAAGCTTGACTTGGGGGAACAGGTTTTCAGTAT
GATGAATAAGAAGCATGTTGTTTCATGGAGTTCCTTGATCTCAAGTTATG
GCATTCATAGATATGGGAAAAAGGCAATACAAATTTTTGAAGACATGATC
AATCATGGAGTTTCACCGAGTCACATTTCATTTGTTAGTGTCTTGGGGGC
TTGTAGTCACGCAGATCTTGTTGAAGAGGGGGAAATATTGTTTGATTCTA
TGGTTAAAGAACATGGATTATATCCCAGTGTTGAGCACTATGCTTGTATG
GTGGATCTTCTTGGTCGTGCCAATCGGTTAGATGAAGCAGCCAAAGTCAT
AGATAATATGCGGATTGAGCCAGGAGCTAAAGTTTGGGGCGCTCTTCTTG
GATCATGTAGAATACATTGAAACGTTGAGCTAGCGAGAGAGCAAGTAGAA
GGCTATTTGAGCTTGAGCCTAGGAATGCTGGGAACTATGTACTTCTAGCT
GATATTTATGCTGAAGCCAAGTTGTGGGACGATGTAAAAAGAGTGAAGAA
GCATTTAGAAGCTCGAGAACTCCAAAAGGTCCCAGGTCGGAGTTGGATTG
AAGTTAAAAGGAAGATATACTCATTCATTTCCATTGACAAGTTTAACCCA
CAGATGGAGCAGCTCCATGCATTGTTGGCTGAATTGTCGGCAGAGATGAA
AGACCAGGGATATAAGCCGCAAACTAAAGTTGTCCTGTATGGTCTCGATG
AGGAAGAGAAGGAACGAATAGTATTAGGCCATAGTGAAAAATTAGCAGTT
GCATTTGGACTCATAAATTCCAAAAGAGGGGAAACTATTAGGATTTCCAA
GAACTTAAGGTTATGTGAAGATTGTCACCCCGTTACAGAGTTCATTTCTA
AATTCGCCAATAGAGAGATTCTGGTTCGAGATGTGAATCGGTTTCACCAT
TTCCGTGACGGGGTTTGTTCATGTGGAGATTATTGGTAGTTCCAGGTAGA
TATTTTTTCCTAATATATAAAGGGGAGACTTTCGAGGTTTATAGAGATCT
TAAAGGTGTATAGTGTATACTAGGAACACCGTTAAGAATTAATAAAAAAA
TTTGATATTTTATGATTCATATGTTGGTTTGTGATCTTGTAACTCTCTTC
TCTTCTTTGTACTCAATTGGATTGACATCCATAAATTAAATGATTGATCC
GTAAACACAGATTACATGTGCATTCTTTTCATGGTGGATGTACAATGGAA
CGAAGGTGGTCCGAGGACCACTCAAGGCTGGGAAAGAAGCATGTGACGGT
CCTACGGAGATCCTCCGAATATTTGGTACAAGTTTCTTTTTTACCAAGTG
TGATGTAATGCCTGTTAGGCATATTCACGGTAGCACTTGGCAGGTTGTGT
TGACAACATTCAATAAATGCCCTCGATAG

mRNA from alignment at chr7:1423773..1425201-

Legend: CDS

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

>MDP0000595333 ID=MDP0000595333; Name=MDP0000595333; organism=Malus x domestica; type=mRNA; location=Sequence derived from: chr7:1423773..1425201- (Malus x domestica

mRNA from alignment at MDC017090.330:1558..2986-

Legend: CDS

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

>MDP0000595333 ID=MDP0000595333; Name=MDP0000595333; organism=Malus x domestica; type=mRNA; length=1429bp; location=Sequence derived from: MDC017090.330:1558..2986- (Malus x domestica
ATGTATGCGAGATGCGGTAAGCTTGACTTGGGGGAACAGGTTTTCAGTAT
GATGAATAAGAAGCATGTTGTTTCATGGAGTTCCTTGATCTCAAGTTATG
GCATTCATAGATATGGGAAAAAGGCAATACAAATTTTTGAAGACATGATC
AATCATGGAGTTTCACCGAGTCACATTTCATTTGTTAGTGTCTTGGGGGC
TTGTAGTCACGCAGATCTTGTTGAAGAGGGGGAAATATTGTTTGATTCTA
TGGTTAAAGAACATGGATTATATCCCAGTGTTGAGCACTATGCTTGTATG
GTGGATCTTCTTGGTCGTGCCAATCGGTTAGATGAAGCAGCCAAAGTCAT
AGATAATATGCGGATTGAGCCAGGAGCTAAAGTTTGGGGCGCTCTTCTTG
GATCATGTAGAATACATTGAAACGTTGAGCTAGCGAGAGAGCAAGTAGAA
GGCTATTTGAGCTTGAGCCTAGGAATGCTGGGAACTATGTACTTCTAGCT
GATATTTATGCTGAAGCCAAGTTGTGGGACGATGTAAAAAGAGTGAAGAA
GCATTTAGAAGCTCGAGAACTCCAAAAGGTCCCAGGTCGGAGTTGGATTG
AAGTTAAAAGGAAGATATACTCATTCATTTCCATTGACAAGTTTAACCCA
CAGATGGAGCAGCTCCATGCATTGTTGGCTGAATTGTCGGCAGAGATGAA
AGACCAGGGATATAAGCCGCAAACTAAAGTTGTCCTGTATGGTCTCGATG
AGGAAGAGAAGGAACGAATAGTATTAGGCCATAGTGAAAAATTAGCAGTT
GCATTTGGACTCATAAATTCCAAAAGAGGGGAAACTATTAGGATTTCCAA
GAACTTAAGGTTATGTGAAGATTGTCACCCCGTTACAGAGTTCATTTCTA
AATTCGCCAATAGAGAGATTCTGGTTCGAGATGTGAATCGGTTTCACCAT
TTCCGTGACGGGGTTTGTTCATGTGGAGATTATTGGTAGTTCCAGGTAGA
TATTTTTTCCTAATATATAAAGGGGAGACTTTCGAGGTTTATAGAGATCT
TAAAGGTGTATAGTGTATACTAGGAACACCGTTAAGAATTAATAAAAAAA
TTTGATATTTTATGATTCATATGTTGGTTTGTGATCTTGTAACTCTCTTC
TCTTCTTTGTACTCAATTGGATTGACATCCATAAATTAAATGATTGATCC
GTAAACACAGATTACATGTGCATTCTTTTCATGGTGGATGTACAATGGAA
CGAAGGTGGTCCGAGGACCACTCAAGGCTGGGAAAGAAGCATGTGACGGT
CCTACGGAGATCCTCCGAATATTTGGTACAAGTTTCTTTTTTACCAAGTG
TGATGTAATGCCTGTTAGGCATATTCACGGTAGCACTTGGCAGGTTGTGT
TGACAACATTCAATAAATGCCCTCGATAG

Coding sequence (CDS) from alignment at MDC017090.330:1558..2986-

>MDP0000595333 ID=MDP0000595333; Name=MDP0000595333; organism=Malus x domestica; type=CDS; length=1158bp; location=Sequence derived from: MDC017090.330:1558..2986- (Malus x domestica
ATGTATGCGAGATGCGGTAAGCTTGACTTGGGGGAACAGGTTTTCAGTAT
GATGAATAAGAAGCATGTTGTTTCATGGAGTTCCTTGATCTCAAGTTATG
GCATTCATAGATATGGGAAAAAGGCAATACAAATTTTTGAAGACATGATC
AATCATGGAGTTTCACCGAGTCACATTTCATTTGTTAGTGTCTTGGGGGC
TTGTAGTCACGCAGATCTTGTTGAAGAGGGGGAAATATTGTTTGATTCTA
TGGTTAAAGAACATGGATTATATCCCAGTGTTGAGCACTATGCTTGTATG
GTGGATCTTCTTGGTCGTGCCAATCGGTTAGATGAAGCAGCCAAAGTCAT
AGATAATATGCGGATTGAGCCAGGAGCTAAAGTTTGGGGCGCTCTTCTTG
GATCATCTAGCGAGAGAGCAAGTAGAAGGCTATTTGAGCTTGAGCCTAGG
AATGCTGGGAACTATGTACTTCTAGCTGATATTTATGCTGAAGCCAAGTT
GTGGGACGATGTAAAAAGAGTGAAGAAGCATTTAGAAGCTCGAGAACTCC
AAAAGGTCCCAGGTCGGAGTTGGATTGAAGTTAAAAGGAAGATATACTCA
TTCATTTCCATTGACAAGTTTAACCCACAGATGGAGCAGCTCCATGCATT
GTTGGCTGAATTGTCGGCAGAGATGAAAGACCAGGGATATAAGCCGCAAA
CTAAAGTTGTCCTGTATGGTCTCGATGAGGAAGAGAAGGAACGAATAGTA
TTAGGCCATAGTGAAAAATTAGCAGTTGCATTTGGACTCATAAATTCCAA
AAGAGGGGAAACTATTAGGATTTCCAAGAACTTAAGGTTATGTGAAGATT
GTCACCCCGTTACAGAGTTCATTTCTAAATTCGCCAATAGAGAGATTCTG
GTTCGAGATGTGAATCGGTTTCACCATTTCCGTGACGGGATTACATGTGC
ATTCTTTTCATGGTGGATGTACAATGGAACGAAGGTGGTCCGAGGACCAC
TCAAGGCTGGGAAAGAAGCATGTGACGGTCCTACGGAGATCCTCCGAATA
TTTGGTACAAGTTTCTTTTTTACCAAGTGTGATGTAATGCCTGTTAGGCA
TATTCACGGTAGCACTTGGCAGGTTGTGTTGACAACATTCAATAAATGCC
CTCGATAG

Annotated Terms

The following terms have been associated with this mRNA:

Vocabulary: **INTERPRO**
Term	Definition
IPR002885	Pentatricopeptide_rpt