MDP0000213636, MDP0000213636 (mRNA) Malus spp. (apple)

Transcript Overview


Name	MDP0000213636
Unique Name	MDP0000213636
Type	mRNA
Organism	Malus x domestica (Apple)
Sequence length	2543

Alignments

The following features are aligned


Feature Name	Type	Location	Analysis	Reference
chr5	chromosome	chr5:631406..633948 +	Malus x domestica Whole Genome v1.0 Assembly & Annotation	n/a
MDC016137.159	contig	MDC016137.159:8950..11492 +	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
MDP0000213636_exon_1	MDP0000213636_exon_1	Malus x domestica	CDS
MDP0000213636_exon_2	MDP0000213636_exon_2	Malus x domestica	CDS
MDP0000213636_exon_3	MDP0000213636_exon_3	Malus x domestica	CDS
MDP0000213636_exon_4	MDP0000213636_exon_4	Malus x domestica	CDS
MDP0000213636_exon_5	MDP0000213636_exon_5	Malus x domestica	CDS
MDP0000213636_exon_6	MDP0000213636_exon_6	Malus x domestica	CDS

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


Feature Name	Unique Name	Species	Type
MDP0000213636	MDP0000213636	Malus x domestica	polypeptide

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
IPR000061	SWAP/Surp	PFAM	PF01805	Surp	coord: 39..91 score: 1.1
IPR000061	SWAP/Surp	SMART	SM00648	Suppressor-of-White-APricot splicing regulat	coord: 39..92 score: 2e-18coord: 142..195 score:
IPR000061	SWAP/Surp	PROFILE	PS50128	SURP	coord: 41..83 score: 15.607coord: 144..186 score: 8
IPR000061	SWAP/Surp	SUPERFAMILY	109905	Surp module (SWAP domain)	coord: 18..98 score: 9.6e-19coord: 115..201 score: 1.6
IPR022030	Pre-mRNA splicing factor PRP21-like protein	PFAM	PF12230	PRP21_like_P	coord: 201..383 score: 3.6
None	No IPR available	COIL	coil	coiled-coil	coord: 228..249 score
None	No IPR available	PANTHER	PTHR15316	FAMILY NOT NAMED	coord: 24..587 score: 4.8e
None	No IPR available	SEG	seg	seg	coord: 392..403 score: NAcoord: 416..427 score: NAcoord: 428..457 score: NAcoord: 490..525 score
None	No IPR available	SUPERFAMILY	54236	Ubiquitin-like	coord: 544..590 score: 1.5
None	No IPR available	SEG	seg	seg	coord: 36..58 score
None	No IPR available	SEG	seg	seg	coord: 23..46 score
None	No IPR available	SEG	seg	seg	coord: 1..11 score
None	No IPR available	SEG	seg	seg	coord: 6..24 score: NAcoord: 49..59 score: NAcoord: 78..83 score
None	No IPR available	SEG	seg	seg	coord: 64..104 score
None	No IPR available	SEG	seg	seg	coord: 15..21 score: NAcoord: 38..55 score
None	No IPR available	SEG	seg	seg	coord: 30..44 score
None	No IPR available	SEG	seg	seg	coord: 2..15 score
None	No IPR available	SEG	seg	seg	coord: 9..39 score: NAcoord: 44..56 score
None	No IPR available	SEG	seg	seg	coord: 19..53 score
None	No IPR available	SEG	seg	seg	coord: 2..14 score: NAcoord: 45..56 score
None	No IPR available	SEG	seg	seg	coord: 25..62 score: NAcoord: 88..109 score

Sequences

The following sequences are available for this feature:

mRNA sequence
protein sequence
mRNA from alignment at chr5:631406..633948+
mRNA from alignment at MDC016137.159:8950..11492+
coding sequence from alignment at MDC016137.159:8950..11492+

mRNA sequence

>MDP0000213636 ID=MDP0000213636; Name=MDP0000213636; organism=Malus x domestica; type=mRNA; length=2543bp
ATGTCGCTGTTACAGGACCCTCCTTCCGATGGAAGCCTCGCGCTTACCAT
TCCGGAGTCGAAAACGATGTCGCACACTAGGGTTATCGGCATGATACGTC
CTCCCCAAGACATTAGAACTATAGTCGACAAAACTGCCCACTTCGTGGCC
AAAAAGGGTCCCGAATTCGTGAAAAGAATTGTGGCTGAAAGTGCTGGAAA
TTCGAAGTTCCATTTTTTGAGTTCCCTAAGTCCTTACCATGCGTATTATC
AGCATCGGTTGTCCGAATTCCGGAACAGGAATCAGCAGCCTGCAGTTTCT
GCCGAGCCAGAGTTGGGGGCGCCACAGGCTCCCGCCATAAAGGGTGGAGC
AGGAGCACCAGTGCCTGATCCCTCTGCCCAGTTTAAACCGGTGCGAAAAG
TGATTGAAACACCGGAATCCGAGCAGTATACTGTTCGTATTCCGGAAGGA
ATTACTGGGGAAGAGTATGATATTATTAAGCTGACAGCCCAGTTTGTGGC
TCGAGAGGGGAATCGTTTTTGGCGGGATTGACAAGCAGGGAAATCAAGCA
CTCCCAGTTCAATTTTCTGAAGCCGGGCAGTGTGATGTTTGCGTTGTTCA
CTTCTCTTTCTGATGCGTATTCGAAGGTGTTGTTGCCGCCGGAGGGTTTA
ACAGAGAAGCTTAGGAAAACTGTTGCAGACATGGAAACCGTGCTTCAACG
GTGTGTAAACCGGCTGGAGTGGGAGCAGTCACAAGAGAAGGAAAGGCGGA
AGGTGGAGGATGAGATTGAGCGGGAAAGGATCCAAATGGCTATGATTGAT
TGGTTTGATTTTGTGGTGGTTGAGACAATAGATTTTGCGGACAATGAGGA
TGAGTATTTACCTTCTCCAATGACGGTTSAGGAGGTTGTTAGGAGSAGCA
GGGTCAAGCATATGGAAGAAGATGAYGTCGAGTTTGAGAAGGCGGTTGAA
ATGGAAAYGGATGAYGAMGAGATGCARCTWGTTGAAGAGGGGTTGKCGAC
AAAGGACATAGGAGAACCGATGAGAGTTGTGAAGAAMTGGAAGAGACCAG
AGGAGAGGATTCATGCCGAGAGAGACTCAATGAAGTATGTTGTTTCGCCA
ATCACCKGGGAGCTTATTCCAAYCRGTGAGATGTCTGAACACATGAGGAT
TTCTCTCATTGATCCAAAATTCAAAGAGCAGAAAGAGAGGATGTTTGCTA
AGATTYGGRATACWACTCTCAAGGAACATTATGGGACTTGCAAGAACYCA
TCCTGATAKTTTTGGTACGGAAGAGGTTTCCAATGTTGWCAAGGCTRAGA
TCGAAAAAAGAAAGATGAGCAAGAAAAGCAGGTYATAYGGGATGGTCACA
CTGGAAGCATTGGCTTTAATCAAAAYTATGTTCYTAAMAACGRTGCMAWG
AACCTTCCTGGTCCAGCAGCTCCTCCTCCAAAGTCGGTTGTGCCTTCAGT
TCGTCSTCTKCCCCCGCCACCTGGTTSGACCTTGATTCTACCTTGTGTTC
CTCTAAACACAGTCCCGTRTTTTACACCTATGCAAGTTCCTCGTGCCTAT
ATTCCTCTTCMTGTTCCTTTACCTACGATGCAATCGATGCCACCACTGCC
TTTGCCTCAGGTTATCCCTCCACCACCACCACCACCACCTGAGAAAGCCC
GTCCACCACGTCCAGAAGAAGAGCCTGAGCCAAAGCGGCAGAAGCTTGAC
GATTATATGCTCATTCCGGAAGATCRGTTTCTGACACAGCACCCGGGACC
TGTATCAGAGTAGCTGTCCCCAATGCCAATGAAGGTAATCTGAAGGGGCR
AGTTTTGGAGATTATAGTGCAGTCATTATCTGAATCTGTTGTTAAGCTGA
AAGAAAAAAWTTCTGYGGAGATTCASCTTCCTGCAAATAAACAGAAACTR
AGTGGAAAACCCGGYTTTCTCAAGGACAATTTGTCRCTTGCTTACTACAA
TGTTGGAGCTGGAGAAACAYTTACCCTTTCAGTACGAGAGMRTGGCARAA
GAARGAGATGATCGRATTAGGYGACCAGGACGATWAAGGTTCTTGCTRGA
AWTTTTTTTGTTACAATGAGAATRTGCAATAYATCATGTGSWAGTCTTYC
AYTCGGTTTTATTTGATGTTATATAGTGAGATTAATATGATSATTTTTTT
TATGAACGTATTATTGTGGTCKTTAAACTGATGGYGATTGTYGTATCTAC
TGCAGATTTGGTGCATCRCCAAGGAGAATGAGAAGTAGATTGATTAGTTC
CTRTTTGCTTTAGCCAAAGCTAGTCATTTGCTTGTATATCYGATTACTGT
TCTTTTTTGCAATGCAGGTTTTCCTATGGAATATGTGTGGTCTTCTGGTT
TTTTATCTTCCTAGAAGCATGCTTGTTTAGACTCATGAAACAGTCTGTGC
AACCAGTTAGATCAACTCTAGCGGCAATGCCATGGCCGGGTTTGATTTCG
GTACCATGCTCAAGGCACAAAGCTGGAATTTATAGCTTTGTATTTTCTCT
AAGATTATTAGAGCACTGCTACGGTTACGTAGGAGATTCCTAA

protein sequence of MDP0000213636

>MDP0000213636 ID=MDP0000213636; Name=MDP0000213636; organism=Malus x domestica; type=polypeptide; length=672bp
MSLLQDPPSDGSLALTIPESKTMSHTRVIGMIRPPQDIRTIVDKTAHFVA
KKGPEFVKRIVAESAGNSKFHFLSSLSPYHAYYQHRLSEFRNRNQQPAVS
AEPELGAPQAPAIKGGAGAPVPDPSAQFKPVRKVIETPESEQYTVRIPEG
ITGEEGESFLAGLTSREIKHSQFNFLKPGSVMFALFTSLSDAYSKVLLPP
EGLTEKLRKTVADMETVLQRCVNRLEWEQSQEKERRKVEDEIERERIQMA
MIDWFDFVVVETIDFADNEDEYLPSPMTVXEVVRXSRVKHMEEDDVEFEK
AVEMEXDDXEMQLVEEGLXTKDIGEPMRVVKXWKRPEERIHAERDSMKYV
VSPITXELIPXXEMSEHMRISLIDPKFKEQKERIGFQCXQGXDRKKKDEQ
EKQVIXDGHTGSIGFNQNYVXXNXAXNLPGPAAPPPKSVVPSVRXLPPPP
GXTLILPCVPLNTVPXFTPMQVPRAYIPLXVPLPTMQSMPPLPLPQVIPP
PPPPPPEKARPPRPEEEPEPKRQKLDDYMLIPEDXFLTQHPGPLKEKXSX
EIXLPANKQKLSGKPGFLKDNLSLAYYNVGAGETXTLSIWCIXKENEKFS
YGICVVFWFFIFLEACLFRLMKQSVQPVRSTLAAMPWPGLISVPCSRHKA
GIYSFVFSLRLLEHCYGYVGDS

mRNA from alignment at chr5:631406..633948+

Legend: CDS

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

>MDP0000213636 ID=MDP0000213636; Name=MDP0000213636; organism=Malus x domestica; type=mRNA; location=Sequence derived from: chr5:631406..633948+ (Malus x domestica

mRNA from alignment at MDC016137.159:8950..11492+

Legend: CDS

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

>MDP0000213636 ID=MDP0000213636; Name=MDP0000213636; organism=Malus x domestica; type=mRNA; length=2543bp; location=Sequence derived from: MDC016137.159:8950..11492+ (Malus x domestica
ATGTCGCTGTTACAGGACCCTCCTTCCGATGGAAGCCTCGCGCTTACCAT
TCCGGAGTCGAAAACGATGTCGCACACTAGGGTTATCGGCATGATACGTC
CTCCCCAAGACATTAGAACTATAGTCGACAAAACTGCCCACTTCGTGGCC
AAAAAGGGTCCCGAATTCGTGAAAAGAATTGTGGCTGAAAGTGCTGGAAA
TTCGAAGTTCCATTTTTTGAGTTCCCTAAGTCCTTACCATGCGTATTATC
AGCATCGGTTGTCCGAATTCCGGAACAGGAATCAGCAGCCTGCAGTTTCT
GCCGAGCCAGAGTTGGGGGCGCCACAGGCTCCCGCCATAAAGGGTGGAGC
AGGAGCACCAGTGCCTGATCCCTCTGCCCAGTTTAAACCGGTGCGAAAAG
TGATTGAAACACCGGAATCCGAGCAGTATACTGTTCGTATTCCGGAAGGA
ATTACTGGGGAAGAGTATGATATTATTAAGCTGACAGCCCAGTTTGTGGC
TCGAGAGGGGAATCGTTTTTGGCGGGATTGACAAGCAGGGAAATCAAGCA
CTCCCAGTTCAATTTTCTGAAGCCGGGCAGTGTGATGTTTGCGTTGTTCA
CTTCTCTTTCTGATGCGTATTCGAAGGTGTTGTTGCCGCCGGAGGGTTTA
ACAGAGAAGCTTAGGAAAACTGTTGCAGACATGGAAACCGTGCTTCAACG
GTGTGTAAACCGGCTGGAGTGGGAGCAGTCACAAGAGAAGGAAAGGCGGA
AGGTGGAGGATGAGATTGAGCGGGAAAGGATCCAAATGGCTATGATTGAT
TGGTTTGATTTTGTGGTGGTTGAGACAATAGATTTTGCGGACAATGAGGA
TGAGTATTTACCTTCTCCAATGACGGTTSAGGAGGTTGTTAGGAGSAGCA
GGGTCAAGCATATGGAAGAAGATGAYGTCGAGTTTGAGAAGGCGGTTGAA
ATGGAAAYGGATGAYGAMGAGATGCARCTWGTTGAAGAGGGGTTGKCGAC
AAAGGACATAGGAGAACCGATGAGAGTTGTGAAGAAMTGGAAGAGACCAG
AGGAGAGGATTCATGCCGAGAGAGACTCAATGAAGTATGTTGTTTCGCCA
ATCACCKGGGAGCTTATTCCAAYCRGTGAGATGTCTGAACACATGAGGAT
TTCTCTCATTGATCCAAAATTCAAAGAGCAGAAAGAGAGGATGTTTGCTA
AGATTYGGRATACWACTCTCAAGGAACATTATGGGACTTGCAAGAACYCA
TCCTGATAKTTTTGGTACGGAAGAGGTTTCCAATGTTGWCAAGGCTRAGA
TCGAAAAAAGAAAGATGAGCAAGAAAAGCAGGTYATAYGGGATGGTCACA
CTGGAAGCATTGGCTTTAATCAAAAYTATGTTCYTAAMAACGRTGCMAWG
AACCTTCCTGGTCCAGCAGCTCCTCCTCCAAAGTCGGTTGTGCCTTCAGT
TCGTCSTCTKCCCCCGCCACCTGGTTSGACCTTGATTCTACCTTGTGTTC
CTCTAAACACAGTCCCGTRTTTTACACCTATGCAAGTTCCTCGTGCCTAT
ATTCCTCTTCMTGTTCCTTTACCTACGATGCAATCGATGCCACCACTGCC
TTTGCCTCAGGTTATCCCTCCACCACCACCACCACCACCTGAGAAAGCCC
GTCCACCACGTCCAGAAGAAGAGCCTGAGCCAAAGCGGCAGAAGCTTGAC
GATTATATGCTCATTCCGGAAGATCRGTTTCTGACACAGCACCCGGGACC
TGTATCAGAGTAGCTGTCCCCAATGCCAATGAAGGTAATCTGAAGGGGCR
AGTTTTGGAGATTATAGTGCAGTCATTATCTGAATCTGTTGTTAAGCTGA
AAGAAAAAAWTTCTGYGGAGATTCASCTTCCTGCAAATAAACAGAAACTR
AGTGGAAAACCCGGYTTTCTCAAGGACAATTTGTCRCTTGCTTACTACAA
TGTTGGAGCTGGAGAAACAYTTACCCTTTCAGTACGAGAGMRTGGCARAA
GAARGAGATGATCGRATTAGGYGACCAGGACGATWAAGGTTCTTGCTRGA
AWTTTTTTTGTTACAATGAGAATRTGCAATAYATCATGTGSWAGTCTTYC
AYTCGGTTTTATTTGATGTTATATAGTGAGATTAATATGATSATTTTTTT
TATGAACGTATTATTGTGGTCKTTAAACTGATGGYGATTGTYGTATCTAC
TGCAGATTTGGTGCATCRCCAAGGAGAATGAGAAGTAGATTGATTAGTTC
CTRTTTGCTTTAGCCAAAGCTAGTCATTTGCTTGTATATCYGATTACTGT
TCTTTTTTGCAATGCAGGTTTTCCTATGGAATATGTGTGGTCTTCTGGTT
TTTTATCTTCCTAGAAGCATGCTTGTTTAGACTCATGAAACAGTCTGTGC
AACCAGTTAGATCAACTCTAGCGGCAATGCCATGGCCGGGTTTGATTTCG
GTACCATGCTCAAGGCACAAAGCTGGAATTTATAGCTTTGTATTTTCTCT
AAGATTATTAGAGCACTGCTACGGTTACGTAGGAGATTCCTAA

Coding sequence (CDS) from alignment at MDC016137.159:8950..11492+

>MDP0000213636 ID=MDP0000213636; Name=MDP0000213636; organism=Malus x domestica; type=CDS; length=2019bp; location=Sequence derived from: MDC016137.159:8950..11492+ (Malus x domestica
ATGTCGCTGTTACAGGACCCTCCTTCCGATGGAAGCCTCGCGCTTACCAT
TCCGGAGTCGAAAACGATGTCGCACACTAGGGTTATCGGCATGATACGTC
CTCCCCAAGACATTAGAACTATAGTCGACAAAACTGCCCACTTCGTGGCC
AAAAAGGGTCCCGAATTCGTGAAAAGAATTGTGGCTGAAAGTGCTGGAAA
TTCGAAGTTCCATTTTTTGAGTTCCCTAAGTCCTTACCATGCGTATTATC
AGCATCGGTTGTCCGAATTCCGGAACAGGAATCAGCAGCCTGCAGTTTCT
GCCGAGCCAGAGTTGGGGGCGCCACAGGCTCCCGCCATAAAGGGTGGAGC
AGGAGCACCAGTGCCTGATCCCTCTGCCCAGTTTAAACCGGTGCGAAAAG
TGATTGAAACACCGGAATCCGAGCAGTATACTGTTCGTATTCCGGAAGGA
ATTACTGGGGAAGAAGGGGAATCGTTTTTGGCGGGATTGACAAGCAGGGA
AATCAAGCACTCCCAGTTCAATTTTCTGAAGCCGGGCAGTGTGATGTTTG
CGTTGTTCACTTCTCTTTCTGATGCGTATTCGAAGGTGTTGTTGCCGCCG
GAGGGTTTAACAGAGAAGCTTAGGAAAACTGTTGCAGACATGGAAACCGT
GCTTCAACGGTGTGTAAACCGGCTGGAGTGGGAGCAGTCACAAGAGAAGG
AAAGGCGGAAGGTGGAGGATGAGATTGAGCGGGAAAGGATCCAAATGGCT
ATGATTGATTGGTTTGATTTTGTGGTGGTTGAGACAATAGATTTTGCGGA
CAATGAGGATGAGTATTTACCTTCTCCAATGACGGTTSAGGAGGTTGTTA
GGAGSAGCAGGGTCAAGCATATGGAAGAAGATGAYGTCGAGTTTGAGAAG
GCGGTTGAAATGGAAAYGGATGAYGAMGAGATGCARCTWGTTGAAGAGGG
GTTGKCGACAAAGGACATAGGAGAACCGATGAGAGTTGTGAAGAAMTGGA
AGAGACCAGAGGAGAGGATTCATGCCGAGAGAGACTCAATGAAGTATGTT
GTTTCGCCAATCACCKGGGAGCTTATTCCAAYCRGTGAGATGTCTGAACA
CATGAGGATTTCTCTCATTGATCCAAAATTCAAAGAGCAGAAAGAGAGGA
TAGGTTTCCAATGTTGWCAAGGCTRAGATCGAAAAAAGAAAGATGAGCAA
GAAAAGCAGGTYATAYGGGATGGTCACACTGGAAGCATTGGCTTTAATCA
AAAYTATGTTCYTAAMAACGRTGCMAWGAACCTTCCTGGTCCAGCAGCTC
CTCCTCCAAAGTCGGTTGTGCCTTCAGTTCGTCSTCTKCCCCCGCCACCT
GGTTSGACCTTGATTCTACCTTGTGTTCCTCTAAACACAGTCCCGTRTTT
TACACCTATGCAAGTTCCTCGTGCCTATATTCCTCTTCMTGTTCCTTTAC
CTACGATGCAATCGATGCCACCACTGCCTTTGCCTCAGGTTATCCCTCCA
CCACCACCACCACCACCTGAGAAAGCCCGTCCACCACGTCCAGAAGAAGA
GCCTGAGCCAAAGCGGCAGAAGCTTGACGATTATATGCTCATTCCGGAAG
ATCRGTTTCTGACACAGCACCCGGGACCTCTGAAAGAAAAAAWTTCTGYG
GAGATTCASCTTCCTGCAAATAAACAGAAACTRAGTGGAAAACCCGGYTT
TCTCAAGGACAATTTGTCRCTTGCTTACTACAATGTTGGAGCTGGAGAAA
CAYTTACCCTTTCAATTTGGTGCATCRCCAAGGAGAATGAGAAGTTTTCC
TATGGAATATGTGTGGTCTTCTGGTTTTTTATCTTCCTAGAAGCATGCTT
GTTTAGACTCATGAAACAGTCTGTGCAACCAGTTAGATCAACTCTAGCGG
CAATGCCATGGCCGGGTTTGATTTCGGTACCATGCTCAAGGCACAAAGCT
GGAATTTATAGCTTTGTATTTTCTCTAAGATTATTAGAGCACTGCTACGG
TTACGTAGGAGATTCCTAA

Annotated Terms

The following terms have been associated with this mRNA:

Vocabulary: **INTERPRO**
Term	Definition
IPR000061	Surp
IPR022030	SF3A1_dom

Vocabulary: **Molecular Function**
Term	Definition
GO:0003723	RNA binding

Vocabulary: **Biological Process**
Term	Definition
GO:0006396	RNA processing