Ciclev10016664m, PAC:20816293 (mRNA) Citrus clementina

Transcript Overview


Name	Ciclev10016664m
Unique Name	PAC:20816293
Type	mRNA
Organism	Citrus clementina (Clementine)
Sequence length	1131

Analyses

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


Analysis Name	Date Performed
Citrus clementina genome v1.0 (JGI)	2012-12-20
InterProScan analysis of Citrus clementina v1.0 transcripts	2012-12-17
C. clementina v1.0 CDS	2018-06-06

Orthologs

Syntenic blocks


Syntentic block	Assembly	Species
cccsR548	Citrus sinensis genome v1.1 (JGI)	Citrus sinensis
cccmR324	Citrus maxima (C. grandis) genome v1.0	Citrus maxima
ccfhR551	Fortunella hindsii genome v1.0	Fortunella hindsii
ccptR277	Poncirus trifoliata genome v1.3.1 (JGI)	Poncirus trifoliata
ccclpR331	Citrus limon L. Burm f. genome v1.0 - Primary	Citrus limon
ccclaR341	Citrus limon L. Burm f. genome v1.0 - Alternative	Citrus limon
cauccL062	Citrus australis genome v1.0 (UQ)	Citrus australis
ccdvaR202	Citrus sinensis cv. Valencia DVS_A genome v1.0	Citrus sinensis
ccdvbR203	Citrus sinensis cv. Valencia DVS_B genome v1.0	Citrus sinensis
ccswoR255	Citrus sinensis Di-Haploid Sweet Orange (DHSO) v3.0 (HZAU)	Citrus sinensis
cccleR470	Citrus limon cv. Eureka genome v1.0	Citrus limon
cccleR498	Citrus limon cv. Eureka genome v1.0	Citrus limon
cccmjR314	Citrus maxima Cupi Majiayou v1.0 genome	Citrus maxima
ccfhsR318	Fortunella hindsii S3y-45 genome v2.0	Fortunella hindsii
cccsnR470	Citrus sinensis cv. Newhall v1.0 genome	Citrus sinensis
cccsnR482	Citrus sinensis cv. Newhall v1.0 genome	Citrus sinensis
ccminR688	Citrus inodora CRC3784 genome v1.0	Citrus inodora
ccminR734	Citrus inodora CRC3784 genome v1.0	Citrus inodora
ccccrR444	Citrus australasica CRC3672 genome v1	Citrus australasica
ccccrR477	Citrus australasica CRC3672 genome v1	Citrus australasica
cceglR0992	Citrus glauca CRC3463 genome v1	Citrus glauca
cceglR1006	Citrus glauca CRC3463 genome v1	Citrus glauca
cceglR1032	Citrus glauca CRC3463 genome v1	Citrus glauca
cceglR1082	Citrus glauca CRC3463 genome v1	Citrus glauca
cceglR1099	Citrus glauca CRC3463 genome v1	Citrus glauca
cccsgR306	Citrus sinensis cv. Gannanzao v1.0 genome	Citrus sinensis
cccizR348	Citrus ichangensis cv. ZGYCC v2.0 genome	Citrus ichangensis
abhccL081	Atalantia buxifolia cv. HKC v2.0 genome	Atalantia buxifolia
cccllR344	Citrus linwuensis cv. LW genome v1.0	Citrus linwuensis
cccmxR380	Citrus maxima cv. XGF genome v1.0	Citrus maxima
cccmmR332	Citrus mangshanensis cv. MSYG genome v1.0	Citrus mangshanensis
caaccL526	Citrus australasica cv. AZM genome v1.0	Citrus australasica
ccchhR408	Citrus hongheensis cv. HH genome v1.0	Citrus hongheensis
ccchhR426	Citrus hongheensis cv. HH genome v1.0	Citrus hongheensis
ccmpkR260	Murraya paniculata genome v1.0 (Kunming)	Murraya paniculata
ccclhR327	Clausena lansium cv. HP genome v1.0	Clausena lansium
ccmpjR342	Murraya paniculata cv. JLX genome v1.0	Murraya paniculata
aeaccL106	Aegle marmelos cv. AEG genome v1.0	Aegle marmelos
cccigR337	Citropsis gilletiana cv. CGI genome v1.0	Citropsis gilletiana
cccigR348	Citropsis gilletiana cv. CGI genome v1.0	Citropsis gilletiana
cccmhR276	Citrus maxima cv. Huazhouyou-tomentosa (HZY-T) genome v1.0	Citrus maxima
cclssR368	Luvunga scandens cv. SYT genome v1.0	Luvunga scandens
ccclxR356	Citrus limon cv. Xiangshui genome v1.0	Citrus limon
cccsjR460	Citrus sinensis cv. Jinhong genome v1.0	Citrus sinensis
cccsjR502	Citrus sinensis cv. Jinhong genome v1.0	Citrus sinensis
ccneiR278	Citrus sinensis cv. Neixiu genome v1.0	Citrus sinensis
cccraR413	Citrus australasica cv. Rainbow genome v1.0	Citrus australasica
cccraR426	Citrus australasica cv. Rainbow genome v1.0	Citrus australasica
cccchR257	Citrus changshanensis cv. Huyou genome v1.0	Citrus changshanensis
ccciuR407	Citrus inodora genome v1.0 (UQ)	Citrus inodora
ccciuR439	Citrus inodora genome v1.0 (UQ)	Citrus inodora
cccgaR414	Citrus garrawayi genome v1.0 (UQ)	Citrus garrawayi
cccguR385	Citrus glauca genome v1.0 (UQ)	Citrus glauca
cccgaR451	Citrus garrawayi genome v1.0 (UQ)	Citrus garrawayi
cccguR427	Citrus glauca genome v1.0 (UQ)	Citrus glauca
cccumR575	Citrus unshiu cv. Miyagawa Wase genome v1.0	Citrus unshiu
cccrcR310	Citrus reticulata 'Chachi' cv. Dazhongyoushen genome v1.0	Citrus reticulata
cccstR293	Citrus sinensis cv. Newhall T2T v2.0 genome	Citrus sinensis

Orthologs


Gene/Transcript	Assembly	Species
eg_v1.0.alternate_g9086.t1	Citrus glauca CRC3463 genome v1	Citrus glauca
hap2-g4697.t1	Citrus garrawayi genome v1.0 (UQ)	Citrus garrawayi
gene-KPL70_004169-mRNA2	Citrus sinensis cv. Valencia DVS_A genome v1.0	Citrus sinensis
eg_v1.0.alternate_g9071.t1	Citrus glauca CRC3463 genome v1	Citrus glauca
Ptrif.0002s1764.1.v1.3.1	Poncirus trifoliata genome v1.3.1 (JGI)	Poncirus trifoliata
Chh011380.1	Citrus hongheensis cv. HH genome v1.0	Citrus hongheensis
Cau_v1.primary_g4516.t1	Citrus australasica CRC3672 genome v1	Citrus australasica
Citropsis199370.1	Citropsis gilletiana cv. CGI genome v1.0	Citropsis gilletiana
g5213.t1	Citrus australasica cv. Rainbow genome v1.0	Citrus australasica
hap1-g4544.t1	Citrus garrawayi genome v1.0 (UQ)	Citrus garrawayi
Cs_ont_2g015230.2	Citrus sinensis Di-Haploid Sweet Orange (DHSO) v3.0 (HZAU)	Citrus sinensis
eg_v1.0.primary_g6970.t1	Citrus glauca CRC3463 genome v1	Citrus glauca
NM_gene08371.t1	Citrus limon cv. Eureka genome v1.0	Citrus limon
sjg276820.1	Fortunella hindsii genome v1.0	Fortunella hindsii
g6320.t1	Citrus australasica cv. Rainbow genome v1.0	Citrus australasica
mi_v1.0.primary_g4955.t1	Citrus inodora CRC3784 genome v1.0	Citrus inodora
hap2-g4525.t1	Citrus inodora genome v1.0 (UQ)	Citrus inodora
drCitSine.Jinhong.1.0.HB2g16460.1	Citrus sinensis cv. Jinhong genome v1.0	Citrus sinensis

Relationships

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


Feature Name	Unique Name	Species	Type
Ciclev10016664m.g	Ciclev10016664m.g	Citrus clementina	gene

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


Feature Name	Unique Name	Species	Type
PAC:20816293.five_prime_UTR.1	PAC:20816293.five_prime_UTR.1	Citrus clementina	five_prime_UTR

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


Feature Name	Unique Name	Species	Type
PAC:20816293.CDS.1	PAC:20816293.CDS.1	Citrus clementina	CDS
PAC:20816293.CDS.2	PAC:20816293.CDS.2	Citrus clementina	CDS

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


Feature Name	Unique Name	Species	Type
PAC:20816293.three_prime_UTR.1	PAC:20816293.three_prime_UTR.1	Citrus clementina	three_prime_UTR

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


Feature Name	Unique Name	Species	Type
PAC:20816293	PAC:20816293	Citrus clementina	polypeptide

Homology

The following BLAST results are available for this feature:

BLAST of Ciclev10016664m vs. DB:SwissProt

BLAST of Ciclev10016664m vs. DB:SwissProt
Analysis Date: 2018-06-06 (C. clementina v1.0 CDS)
Total hits: 0

Position :

Zoom :

x 1


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterProScan analysis of Citrus clementina v1.0 transcripts
Date Performed: 2012-12-17

Position :

Zoom :

x 1


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	SEG	seg	seg	coord: 94..111 score: NAcoord: 195..200 score

Sequences

The following sequences are available for this feature:

mRNA sequence
protein sequence
mRNA from alignment at scaffold_2:25672325..25673455+
coding sequence from alignment at scaffold_2:25672325..25673455+

mRNA sequence

>PAC:20816293 ID=PAC:20816293; Name=Ciclev10016664m; organism=Citrus clementina; type=mRNA; length=1131bp
GGATCTGCTTAAATCATCTTGCACAGTAACGCACTTGAAACTCACAGGTA
GCAGTGACAATATCTTCAAAAACACAATAACAAGCTCAAAGATTCTGCCA
TGGATAAGTAAGTATTTGATCTTGATCTCTCTCGTTAAGTTCATCGCCGT
ATACAAGTTATTTCATGGAATCTAACATTTATTTTTTCCATCATTTTGAA
TTTTTTTCTCAGAGAAAAACTTGAGGCTATGGCAATCAGTCAAAAGGCTT
TAGATGAACCAGTGAACTTGCTATCAAGCTCCAAAAAAGAGGACATTTAC
GATGACATAATAGACGTCCATCTAAAAGCTCTAGACGATCTGGTCAACGT
CAACTCCCTCTTCACAATAGCAGTATTTGTGGGATTATCCTTAGCTTCCC
GAAACCAACGGTCTCTGGATGGCCGGCCCGAGTGCGACCCAGACGTTGGC
CTCGGGAAAAGACTCATCTTATACGAAGTTATATCATTCGCCTGCTTCCT
TCTGTCGAGTCTATGCTCCAAGTCACTCAAAGTACTCATCAACTTGGAAA
AAATCAAGAGAAAGATCAAAGTCAAACGGACGCCGAAGCTAGAGGGGCTG
TTTAAGAACATTCTTCTGTCGGGGACCTGGAGGCTATTCTTGCTGGTGCT
ATCGATTGTGGCGTTGTTTATTGGGATTGTTTTCCTGACGCTGTCAATGG
TGTATGTGATTCAGATAAGAGTGGGGAAGCTGTCCTGTGGGAGTGACTAT
GCTTTGACTTCGGTGGCTTCACTGTGTGGTATTGTTCTTCTATCTCTCCT
GCTTTATGCGCCATCCATGGTGTTCGTTGTAATTGCAACTGCCCCAAGAC
ATTGATGTCTCAGTCATCTGTGCAACATTATGCTATCTCACTGTAATTGA
GTAAAAGTTCAGAAGTGAACTAGTGTGTGGTGAGTGATGGATCTATGATG
CGATTTTTTTTTATAATTTATTTTAGTTATTCGATATTTTTGACATTGAA
AAGTTTGGTGAGAATATGACTAATAAGCGATTTAAGTTATTTATTTTTTA
AGGTACATGTTTATGTATTTATATGCATAAAATATTGTATTCTCCGGTAC
CTAAATTTAAACTATTGTTCAATTGTTGTGC

protein sequence of PAC:20816293

>PAC:20816293 ID=PAC:20816293; Name=PAC:20816293; organism=Citrus clementina; type=polypeptide; length=217bp
MDKEKLEAMAISQKALDEPVNLLSSSKKEDIYDDIIDVHLKALDDLVNVN
SLFTIAVFVGLSLASRNQRSLDGRPECDPDVGLGKRLILYEVISFACFLL
SSLCSKSLKVLINLEKIKRKIKVKRTPKLEGLFKNILLSGTWRLFLLVLS
IVALFIGIVFLTLSMVYVIQIRVGKLSCGSDYALTSVASLCGIVLLSLLL
YAPSMVFVVIATAPRH*

mRNA from alignment at scaffold_2:25672325..25673455+

Legend: five_prime_UTRCDSthree_prime_UTR

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

> ID=; Name=; organism= ; type=; length=1131bp; location=Sequence derived from: scaffold_2:25672325..25673455+ (Citrus clementina
GGATCTGCTTAAATCATCTTGCACAGTAACGCACTTGAAACTCACAGGTA
GCAGTGACAATATCTTCAAAAACACAATAACAAGCTCAAAGATTCTGCCA
TGGATAAGTAAGTATTTGATCTTGATCTCTCTCGTTAAGTTCATCGCCGT
ATACAAGTTATTTCATGGAATCTAACATTTATTTTTTCCATCATTTTGAA
TTTTTTTCTCAGAGAAAAACTTGAGGCTATGGCAATCAGTCAAAAGGCTT
TAGATGAACCAGTGAACTTGCTATCAAGCTCCAAAAAAGAGGACATTTAC
GATGACATAATAGACGTCCATCTAAAAGCTCTAGACGATCTGGTCAACGT
CAACTCCCTCTTCACAATAGCAGTATTTGTGGGATTATCCTTAGCTTCCC
GAAACCAACGGTCTCTGGATGGCCGGCCCGAGTGCGACCCAGACGTTGGC
CTCGGGAAAAGACTCATCTTATACGAAGTTATATCATTCGCCTGCTTCCT
TCTGTCGAGTCTATGCTCCAAGTCACTCAAAGTACTCATCAACTTGGAAA
AAATCAAGAGAAAGATCAAAGTCAAACGGACGCCGAAGCTAGAGGGGCTG
TTTAAGAACATTCTTCTGTCGGGGACCTGGAGGCTATTCTTGCTGGTGCT
ATCGATTGTGGCGTTGTTTATTGGGATTGTTTTCCTGACGCTGTCAATGG
TGTATGTGATTCAGATAAGAGTGGGGAAGCTGTCCTGTGGGAGTGACTAT
GCTTTGACTTCGGTGGCTTCACTGTGTGGTATTGTTCTTCTATCTCTCCT
GCTTTATGCGCCATCCATGGTGTTCGTTGTAATTGCAACTGCCCCAAGAC
ATTGATGTCTCAGTCATCTGTGCAACATTATGCTATCTCACTGTAATTGA
GTAAAAGTTCAGAAGTGAACTAGTGTGTGGTGAGTGATGGATCTATGATG
CGATTTTTTTTTATAATTTATTTTAGTTATTCGATATTTTTGACATTGAA
AAGTTTGGTGAGAATATGACTAATAAGCGATTTAAGTTATTTATTTTTTA
AGGTACATGTTTATGTATTTATATGCATAAAATATTGTATTCTCCGGTAC
CTAAATTTAAACTATTGTTCAATTGTTGTGC

Coding sequence (CDS) from alignment at scaffold_2:25672325..25673455+

>PAC:20816293 ID=PAC:20816293; Name=Ciclev10016664m; organism=Citrus clementina; type=CDS; length=651bp; location=Sequence derived from: scaffold_2:25672325..25673455+ (Citrus clementina
ATGGATAAAGAAAAACTTGAGGCTATGGCAATCAGTCAAAAGGCTTTAGA
TGAACCAGTGAACTTGCTATCAAGCTCCAAAAAAGAGGACATTTACGATG
ACATAATAGACGTCCATCTAAAAGCTCTAGACGATCTGGTCAACGTCAAC
TCCCTCTTCACAATAGCAGTATTTGTGGGATTATCCTTAGCTTCCCGAAA
CCAACGGTCTCTGGATGGCCGGCCCGAGTGCGACCCAGACGTTGGCCTCG
GGAAAAGACTCATCTTATACGAAGTTATATCATTCGCCTGCTTCCTTCTG
TCGAGTCTATGCTCCAAGTCACTCAAAGTACTCATCAACTTGGAAAAAAT
CAAGAGAAAGATCAAAGTCAAACGGACGCCGAAGCTAGAGGGGCTGTTTA
AGAACATTCTTCTGTCGGGGACCTGGAGGCTATTCTTGCTGGTGCTATCG
ATTGTGGCGTTGTTTATTGGGATTGTTTTCCTGACGCTGTCAATGGTGTA
TGTGATTCAGATAAGAGTGGGGAAGCTGTCCTGTGGGAGTGACTATGCTT
TGACTTCGGTGGCTTCACTGTGTGGTATTGTTCTTCTATCTCTCCTGCTT
TATGCGCCATCCATGGTGTTCGTTGTAATTGCAACTGCCCCAAGACATTG
A