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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtagtgattgctaataaaatacatgtaggtgtagcttacatatccaagcttcgttaatagaagtcataaaaccggtgaaaatataatgcag

Basic information

species Zea mays
transcript GRMZM2G121456_T03
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 7
lower sequence: LOC_Os03g19510.1 (Oryza sativa), 5'ss of exon 7
CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtagtgattgctaataaaatacatgtaggtgtagcttacatatccaagcttcgttaatagaagtcataaaaccggtgaaaatataatgcag
 |||||||||||||| |||||||||||||| |||||||   | |||||||| ||||  ||    |  |  | |     |  ||  |     |   |  | |||   |    ||  |||||  | |||  |||
TATGGGAGCTTTTCTGCTTAGTGCTGGGACAAAAGgtaattg-agtgattgttaatgcaagtactacatttattctacaactagactgatctgaatccttgaa--tactgtacttgtgaa--tgtaacacag

upper sequence: GRMZM2G121456_T03 (Zea mays), 5'ss of exon 7
lower sequence: AT1G02560.1 (Arabidopsis thaliana), 5'ss of exon 7
CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgta--ccagtagt------gattgctaataaaatacatgtaggtgtagcttacatatccaagcttcgttaatagaagtcataaa--accggtgaaaatataatgcag
 |||||||||||||| ||||||||||| ||||||||||  |   || |       ||   || |||||  | | |||      ||||   ||   |  ||   | ||   ||||||     |   || ||| | ||      
TATGGGAGCTTTTCTGCTTAGTGCTGGAACCAAAGgtagtctcttaatcctttcaatcattagtaaaaatcttttagtgaagtcttatgaatttca-tttttctgatgtgagtcatgctttattcgtaaaactgtag-----
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|19769319|gb|BQ034040.1|BQ034040
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|110519563|gb|EE023896.1|EE023896
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCCACCCTCTT
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACC-TCTT
EST: gi|74237088|gb|DT645002.1|DT645002
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|78092088|gb|DV520462.1|DV520462
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|19821991|gb|BQ048015.1|BQ048015
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAG
EST: gi|71436538|gb|DR817588.1|DR817588
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTC
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTC
EST: gi|148939986|gb|EC884717.2|EC884717
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|32942454|gb|CF047273.1|CF047273
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|211478511|gb|FL023987.1|FL023987
EST:     CATGGGAGCTTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTTACAAAACT
genomic: CATGGGAGCTTTT-CTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTT-ACCAAACT
EST: gi|20208074|gb|BQ134163.1|BQ134163
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|26456147|gb|CA827730.1|CA827730
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|149088221|gb|EE177331.2|EE177331
EST:     CATGGGAACTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|101399114|gb|EB821430.1|EB821430
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|78111070|gb|DV529467.1|DV529467
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|78544613|gb|DV622111.1|DV622111
EST:     CATGGGAGCTTTTTTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|76919121|gb|DV167599.1|DV167599
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|71427481|gb|DR808531.1|DR808531
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|71445134|gb|DR826184.1|DR826184
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|74245787|gb|DT653701.1|DT653701
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|148939985|gb|EC884716.2|EC884716
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTCCCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|78090189|gb|DV518563.1|DV518563
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|148938546|gb|EC882867.2|EC882867
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|19822147|gb|BQ048171.1|BQ048171
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGC
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGC
EST: gi|50338176|gb|CO533302.1|CO533302
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTTACAAAACTCAAGGATAATGATCCATCAACCTCTT
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTT-ACCAAACTCAAGGATAATGATCCATCAACCTCTT
EST: gi|58029811|gb|CX725238.1|CX725238
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|101400189|gb|EB821914.1|EB821914
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|93282145|gb|EB674409.1|EB674409
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|76012850|gb|DT940020.1|DT940020
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|211478510|gb|FL023986.1|FL023986
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|93282646|gb|EB674910.1|EB674910
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCCAAG                         GAAAGCGATACAGCTTACCAAAC
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAAC
EST: gi|9254470|gb|BE344938.1|BE344938
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCTATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|148934818|gb|EC878864.2|EC878864
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAAGATAATGATCCCATCA-CCTCTT
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCC-ATCAACCTCTT
EST: gi|113702266|gb|EE679770.1|EE679770
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GCAAGCTATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|101399344|gb|EB821545.1|EB821545
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|71307773|gb|DR790105.1|DR790105
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
EST: gi|26455779|gb|CA827362.1|CA827362
EST:     CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAG                         GAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG
genomic: CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtag ... tataatgcagGAAAGCGATACAGCTTACCAAACTCAAGGATAATGATCCATCAACCTCTTG

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CATGGGAGCTTTTCTACTTAGTGCTGGGACCAAAGgtaccagtagtgattgctaataaaatacatgtaggtgtagcttacatatccaagcttcgttaatagaagtcataaaaccggtgaaaatataatgcag

- - GGAGCT
- -  GAGCTT