Fraxinus_pennsylvanica_120313_comp100093_c0_seq1

Summary

Annotations

Cross Reference

Location on Map

Publication

Relationship

Sequences

Synonyms

InterProScan

Homology (BLAST)

Significant Expression

Expression

JBrowse

Summary

Resource Type	mRNA- polypeptide
Organism	Fraxinus pennsylvanica (Green Ash)
Name	Fraxinus_pennsylvanica_120313_comp100093_c0_seq1
Identifier	Fraxinus_pennsylvanica_120313_comp100093_c0_seq1
Analyses	Fraxinus pennsylvanica - Transcriptome Assembly Fraxinus pennsylvanica - mRNA BLASTX against SwissProt Fraxinus pennsylvanica - peptides InterProScan Green Ash - Abiotic Stress Gene Expression Fraxinus pennsylvanica - mRNA BLASTX against TrEMBL
Time Last Modified	Sunday, May 24, 2020 - 23:55

Annotations

This record has the following annotations.
Term	Name	Definition
INTERPRO:IPR008889	VQ

Publication

Lane T, Best T, Zembower N, Davitt J, Henry N, Xu Y, Koch J, Liang H, McGraw J, Schuster S, Shim D. The green ash transcriptome and identification of genes responding to abiotic and biotic stresses. BMC genomics. 2016 Dec;17(1):702. ─ More info
Lane T, Best T, Zembower N, Davitt J, Henry N, Xu Y, Koch J, Liang H, McGraw J, Schuster S, Shim D. The green ash transcriptome and identification of genes responding to abiotic and biotic stresses. BMC genomics. 2016 Dec;17(1):702. ─ More info

Relationship

There is 1 relationship.
Relationship
The polypeptide, Fraxinus_pennsylvanica_120313_comp100093_c0_seq1_m.67338, derives from mRNA, Fraxinus_pennsylvanica_120313_comp100093_c0_seq1.

Sequences

mRNA Sequence	TGATTTCACATGCATGAAGTAGTTAAATATATATAATCCATCAGAACCAT CCGAAAATCATAAACAGTAATTAAGTACTACAACATGTACAAAACTTGAA GGAGAGAAATCATAATAAGTATTAATTGTTACACAATTAAAAGGGATCTT GGCGCTGGAACTGTTGATGCTGGTTGTTGTAAAAATATTGCTGATCTTGC GCCTTATAACTCCGGCCAGAAACGAACTCCAATGGATTATTTCTTGTGGA AATTAGACCATTGAGCTGCTGATGATCAGTAGCTGATGATGAGGAGGATC CAAAACACAAAGTGATCGGCCCTCTCTGAGTGTGGCTGCAACCGGTGTGT TTTTGCACTAGGGATCTAAAATTTGTTATGTGGGCATTCAGATAAGTCGT CGGAGTTAGCCTCGAAGCTCTGGACCGCCTCCGTTTTGGAGTCCCCGGAC TGGTTTTCGTCTTCAAATCACTCCCAGCTGTTGAACTTGAATTTTCTGGG CTGTTACTTGTAACCACTACACTGTAATCAGGGTTGAATAGGTTTTCGTT TATATCGAAATTAGTAGTTGACACCATCGTTGCATCGGAAAATTCGGGAC AAGGCATGAAAAAGTCATCAATTAATATTGGTTCTTGGTAGTATTGTTCC CACGGAGAAGAGCTTGGGACATGGTCACTCATGGTGGCTTTCGGTGGGTG TTTTCTATAGCACTCCCTCTTAGCCCTTTTTAGCCTCTGATCATAGGAAG AATACAACACCCTTTGCTAAAAACACACTCATATATATAGCGACAATCAA TCAGAATAACAGGTTCCGATTTTCAAACCAGTCATGTCGCGTGCTTGCTG ACCAGACCATTCATGTCATTGATATATATTTATAC
Sequence Length	885
Protein Sequence	MSDHVPSSSPWEQYYQEPILIDDFFMPCPEFSDATMVSTTNFDINENLFN PDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNA HITNFRSLVQKHTGCSHTQRGPITLCFGSSSSSATDHQQLNGLISTRNNP LEFVSGRSYKAQDQQYFYNNQHQQFQRQDPF*

mRNA Sequence

TGATTTCACATGCATGAAGTAGTTAAATATATATAATCCATCAGAACCAT
CCGAAAATCATAAACAGTAATTAAGTACTACAACATGTACAAAACTTGAA
GGAGAGAAATCATAATAAGTATTAATTGTTACACAATTAAAAGGGATCTT
GGCGCTGGAACTGTTGATGCTGGTTGTTGTAAAAATATTGCTGATCTTGC
GCCTTATAACTCCGGCCAGAAACGAACTCCAATGGATTATTTCTTGTGGA
AATTAGACCATTGAGCTGCTGATGATCAGTAGCTGATGATGAGGAGGATC
CAAAACACAAAGTGATCGGCCCTCTCTGAGTGTGGCTGCAACCGGTGTGT
TTTTGCACTAGGGATCTAAAATTTGTTATGTGGGCATTCAGATAAGTCGT
CGGAGTTAGCCTCGAAGCTCTGGACCGCCTCCGTTTTGGAGTCCCCGGAC
TGGTTTTCGTCTTCAAATCACTCCCAGCTGTTGAACTTGAATTTTCTGGG
CTGTTACTTGTAACCACTACACTGTAATCAGGGTTGAATAGGTTTTCGTT
TATATCGAAATTAGTAGTTGACACCATCGTTGCATCGGAAAATTCGGGAC
AAGGCATGAAAAAGTCATCAATTAATATTGGTTCTTGGTAGTATTGTTCC
CACGGAGAAGAGCTTGGGACATGGTCACTCATGGTGGCTTTCGGTGGGTG
TTTTCTATAGCACTCCCTCTTAGCCCTTTTTAGCCTCTGATCATAGGAAG
AATACAACACCCTTTGCTAAAAACACACTCATATATATAGCGACAATCAA
TCAGAATAACAGGTTCCGATTTTCAAACCAGTCATGTCGCGTGCTTGCTG
ACCAGACCATTCATGTCATTGATATATATTTATAC

Sequence Length

885

Protein Sequence

MSDHVPSSSPWEQYYQEPILIDDFFMPCPEFSDATMVSTTNFDINENLFN
PDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNA
HITNFRSLVQKHTGCSHTQRGPITLCFGSSSSSATDHQQLNGLISTRNNP
LEFVSGRSYKAQDQQYFYNNQHQQFQRQDPF*

InterProScan

The following InterPro results are available for this feature:

Analysis Name: Fraxinus pennsylvanica - peptides InterProScan
Date Performed: 2016-04-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR008889	VQ	PFAM	PF05678	VQ	coord: 94..114 e-value: 1.4E-4 score: 20.7

Homology (BLAST)

Click a tab below to view blast alignments.

Fraxinus pennsylvanica - mRNA BLASTX against SwissProt

Performed on: 2016-04-25
Details: Fraxinus pennsylvanica - mRNA BLASTX against SwissProt
Display provided by the neXtProt Feature Viewer

Show Results Table

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BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. Swiss-Prot
Match Name: VQ22_ARATH
Description: VQ motif-containing protein 22 OS=Arabidopsis thaliana GN=VQ22 PE=2 SV=1

HSP 1 Score: 59.6918 bits (143), Expect = 1.815e-9
Identity = 36/92 (39.13%), Postives = 55/92 (59.78%), Query Frame = -3

Query:      281 NPDYSVVVTSNSPENSSSTAG--SDLKTKTSPGT-----PKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGCSHTQRGPITLCFGSSSSSA 535
                N  +    T+ S   +++TAG  + + ++ SP T     P RRRSRASR TPTT LN   +NFR++VQ++TG      GP  + FGS ++++
Sbjct:       14 NQTFFTTSTTASTAVTTTTAGDTTSIDSRLSPETGRVTKPTRRRSRASRRTPTTLLNTDTSNFRAMVQQYTG------GPSAMAFGSGNTTS 99


Match Name	Summary
VQ22_ARATH	E-Value: 1.815e-9, PID: 39.13 Description: VQ motif-containing protein 22 OS=Arabidopsis thaliana GN=VQ22 PE=2 SV=1 [more]

Fraxinus pennsylvanica - mRNA BLASTX against TrEMBL

Performed on: 2016-04-25
Details: Fraxinus pennsylvanica - mRNA BLASTX against TrEMBL
Display provided by the neXtProt Feature Viewer

Show Results Table

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: M5WK99_PRUPE
Description: M5WK99_PRUPE

HSP 1 Score: 75.0998 bits (183), Expect = 2.672e-14
Identity = 49/134 (36.57%), Postives = 62/134 (46.27%), Query Frame = -3

Query:      296 VPSSSPWEQYYQEPILIDDFFMPC-PEFSDATMVSTTNFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGCSHT--------QRGPITLCFGS 670
                +P S+ W QYYQ+  + +    P    FSDAT+V+T                              G  L    S   P RRRSR S+ TP T LNA+  NFR+LVQ+ TGC+ +        QRGPI L FGS
Sbjct:        1 MPGSTEWGQYYQQAFMDNGQATPTNGGFSDATIVTTR----------------------------GGGQLTPTRSVSKPIRRRSRVSKKTPITLLNANANNFRALVQQFTGCATSSSPISFGNQRGPINLSFGS 106

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: G7INF7_MEDTR
Description: G7INF7_MEDTR

HSP 1 Score: 75.8702 bits (185), Expect = 4.627e-14
Identity = 53/134 (39.55%), Postives = 70/134 (52.24%), Query Frame = -3

Query:      287 WEQYYQEPILIDDFFMPCP--EFSDATMVSTTNFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGC----------SHTQRGPITLCFGSSSS 652
                W QYYQ+P L+D    P P   FSD+T+++T    +   + +P  S   TS+      +  G ++        P RRRSRAS+ TPTT LNA+ TNFR LVQ+ TGC              +GPITL F   SS
Sbjct:       13 WMQYYQQP-LMDHTLNPPPIENFSDSTVMTTNPIPLETMILSPTNSYTNTSDQ----LTPKGGNI------SKPIRRRSRASKRTPTTLLNANTTNFRQLVQQFTGCPSTTLSSSSSLGVHKGPITLNFQQGSS 135

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: I3SJD8_MEDTR
Description: I3SJD8_MEDTR

HSP 1 Score: 73.9442 bits (180), Expect = 1.668e-13
Identity = 52/134 (38.81%), Postives = 69/134 (51.49%), Query Frame = -3

Query:      287 WEQYYQEPILIDDFFMPCP--EFSDATMVSTTNFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGC----------SHTQRGPITLCFGSSSS 652
                W QYYQ+P L+D    P P   FSD+T+++T    +   + +P  S   TS+      +  G ++        P RRRSRAS+ TPTT LNA+  NFR LVQ+ TGC              +GPITL F   SS
Sbjct:       13 WMQYYQQP-LMDHTLNPPPIENFSDSTVMTTNPIPLETMILSPTNSYTNTSDQ----LTPKGGNI------SKPIRRRSRASKRTPTTLLNANTANFRQLVQQFTGCPSTTLSSSSSLGVHKGPITLNFQQGSS 135

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: M1AK30_SOLTU
Description: M1AK30_SOLTU

HSP 1 Score: 71.633 bits (174), Expect = 8.019e-13
Identity = 55/146 (37.67%), Postives = 74/146 (50.68%), Query Frame = -3

Query:      245 YYQEPILIDDFFMPCPEFSDATMVSTT--NFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPK-----RRRSRASRLTPTTYLNAHITNFRSLVQKHTGC------SHTQRGPITLCFGSSSSSATDHQQLNGLIST 643
                YYQ+   +++   P   FSD+T+ +T   N  I+ +  +  YS  ++ N           D+    SP T       RRRSRAS+ TPTT LNA ITNFR+LVQ+HTGC       + Q+GPI L FG       DH   N L  +
Sbjct:       16 YYQQDFALEN--NPHEYFSDSTITTTNTQNMTIDHHHHH-QYSSRISEND----------DIHELISPKTTAIKPVTRRRSRASKKTPTTLLNASITNFRALVQQHTGCHTCPTFKNNQKGPINLSFG----PPNDHDDQNELFGS 144

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: B9MUN3_POPTR
Description: B9MUN3_POPTR

HSP 1 Score: 71.2478 bits (173), Expect = 1.507e-12
Identity = 56/137 (40.88%), Postives = 68/137 (49.64%), Query Frame = -3

Query:      272 SSSPWEQYYQEPILIDDFFMPCPEFSDATMVSTTNFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGC------SHTQRGPITLCFGSSSSSATDH 664
                SSS W Q Y E   I     P   FSDAT V+T+      ++ NP  S+         +SS     L  K     P +RRSRAS+ TP+T L A   NFR+LVQ+ TGC         Q+GPITL FG    SA DH
Sbjct:        4 SSSDWVQLY-EQANIHGQATPSFGFSDATNVATSGA---SHIINPSSSI---------TSSAGDQTLTPKGCGSKPIKRRSRASKKTPSTLLTATTANFRALVQQFTGCPSNPISIGNQKGPITLNFG--LGSAQDH 125

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: A0A0B2QYJ0_GLYSO
Description: A0A0B2QYJ0_GLYSO

HSP 1 Score: 71.633 bits (174), Expect = 1.513e-12
Identity = 57/158 (36.08%), Postives = 77/158 (48.73%), Query Frame = -3

Query:      206 WEQYYQEPILIDDFFMPCPEFSDATMVSTTNFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGCSHT-------QRGPITLCF--GSSSSSATDHQQLNGLISTRNNPLEFVSGRSY 652
                W Q+YQ+P++         +     +   T            +S   T   P + S++  S L  K +   P RRRSRAS+ TPTT LNA+ TNFR+LVQ+ TGC  T        +GPITL F  GSSS+    H       +T +  +  VSGRSY
Sbjct:       14 WMQFYQQPLMDSHGHDHDHDHDHHALAPNTT---------EGFSSSPTPTMPSSESNSILSQLSPKGNVSKPIRRRSRASKRTPTTLLNANPTNFRALVQQFTGCPRTTMSTLGVHKGPITLNFQQGSSSTEQKVHPH-----NTSSRVVLPVSGRSY 157

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: I1L165_SOYBN
Description: I1L165_SOYBN

HSP 1 Score: 71.2478 bits (173), Expect = 1.825e-12
Identity = 56/158 (35.44%), Postives = 77/158 (48.73%), Query Frame = -3

Query:      206 WEQYYQEPILIDDFFMPCPEFSDATMVSTTNFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGCSHT-------QRGPITLCF--GSSSSSATDHQQLNGLISTRNNPLEFVSGRSY 652
                W Q+YQ+P++         +     +   T            +S   T   P + S++  S L  K +   P RRRSRAS+ TPTT LNA+ TNFR+LVQ+ TGC  T        +GPITL F  G+SS+    H       +T +  +  VSGRSY
Sbjct:        8 WMQFYQQPLMDSHGHDHDHDHDHHALAPNTT---------EGFSSSPTPTMPSSESNSILSQLSPKGNVSKPIRRRSRASKRTPTTLLNANPTNFRALVQQFTGCPRTTMSTLGVHKGPITLNFQQGNSSTEQKVHHH-----NTSSRVVLPVSGRSY 151

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: K4B7H9_SOLLC
Description: K4B7H9_SOLLC

HSP 1 Score: 69.707 bits (169), Expect = 1.827e-12
Identity = 37/67 (55.22%), Postives = 45/67 (67.16%), Query Frame = -3

Query:      299 DLKTKTSPGT----PKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGC------SHTQRGPITLCFG 469
                D+   TSP T    P RRRSR+S+ TPTT +NA ITNFR+LVQ+HTGC       + Q+GPI L FG
Sbjct:       22 DIHELTSPKTTTMKPIRRRSRSSKKTPTTLVNASITNFRALVQQHTGCHTCPTFKNNQKGPINLSFG 88

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: K4B5E5_SOLLC
Description: K4B5E5_SOLLC

HSP 1 Score: 69.707 bits (169), Expect = 3.154e-12
Identity = 40/79 (50.63%), Postives = 53/79 (67.09%), Query Frame = -3

Query:      281 SPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGCSHT-----QRGPITLCFGSSSSSA 502
                SP+NS         TK++   P RRRSRAS+ TPTT +NA I+NFR++VQ++TGC HT     Q+GPI L FGS  +S+
Sbjct:       68 SPDNSCG------DTKSASSKPVRRRSRASKKTPTTLVNASISNFRAVVQQYTGC-HTCPINNQKGPINLSFGSQENSS 139

[Close]

BLAST of Fraxinus_pennsylvanica_120313_comp100093_c0_seq1 vs. UNIPROT/TREMBL
Match Name: B9GYA2_POPTR
Description: B9GYA2_POPTR

HSP 1 Score: 70.0922 bits (170), Expect = 4.298e-12
Identity = 56/142 (39.44%), Postives = 74/142 (52.11%), Query Frame = -3

Query:      287 MSDHVPS-SSPWEQYYQEPILIDDFFMPCPEFSDATMVSTTNFDINENLFNPDYSVVVTSNSPENSSSTAGSDLKTKTSPGTPKRRRSRASRLTPTTYLNAHITNFRSLVQKHTGC---------SHTQRGPITLCFGSSSS 682
                MSD + S SS W Q YQ+   I         FSDAT+V+ T+   ++N+ NP+ S +        +SST    L  +     P  RRSRAS+ TP T +NA   NFR+LVQ+ TGC         SH  +GPI L FG  S+
Sbjct:        1 MSDTMASQSSDWVQLYQQGS-IHGQATSSFVFSDATIVNVTS-GASDNIINPNSSSI--------TSSTGDQRLTPQGCVSKPVTRRSRASKKTPATLINASTANFRALVQQFTGCPPSTSISFGSH--KGPINLNFGLGSA 130


Match Name	Summary
M5WK99_PRUPE	E-Value: 2.672e-14, PID: 36.57 Description: M5WK99_PRUPE [more]
G7INF7_MEDTR	E-Value: 4.627e-14, PID: 39.55 Description: G7INF7_MEDTR [more]
I3SJD8_MEDTR	E-Value: 1.668e-13, PID: 38.81 Description: I3SJD8_MEDTR [more]
M1AK30_SOLTU	E-Value: 8.019e-13, PID: 37.67 Description: M1AK30_SOLTU [more]
B9MUN3_POPTR	E-Value: 1.507e-12, PID: 40.88 Description: B9MUN3_POPTR [more]
A0A0B2QYJ0_GLYSO	E-Value: 1.513e-12, PID: 36.08 Description: A0A0B2QYJ0_GLYSO [more]
I1L165_SOYBN	E-Value: 1.825e-12, PID: 35.44 Description: I1L165_SOYBN [more]
K4B7H9_SOLLC	E-Value: 1.827e-12, PID: 55.22 Description: K4B7H9_SOLLC [more]
K4B5E5_SOLLC	E-Value: 3.154e-12, PID: 50.63 Description: K4B5E5_SOLLC [more]
B9GYA2_POPTR	E-Value: 4.298e-12, PID: 39.44 Description: B9GYA2_POPTR [more]

Expression

Available Analyses

Green Ash - Abiotic Stress Gene Expression

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The Green ash (F. pennsylvanica) transcriptome was mapped to the European ash (F. excelsior) genome assembly using GMAP.

Total F. pennsylvanica mrna contigs	Contigs mapped to F. excelsior	>90% identity	>90% coverage
107,611	102,977	80,940	75,379

Reference: Thomas D. Wu and Colin K. Watanabe. GMAP: a genomic mapping and alignment program for mRNA and EST sequences. Bioinformatics 2005 21:1859-1875

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Fraxinus_pennsylvanica_120313_comp100093_c0_seq1

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