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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCCCTACTTCCCAGTGGAGTCCGCGGCGGGGCAGGAGCGTGGGCCGTCGCCCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggcactggattgtgtaaagtgtttgacctccttagggcttgtttggttggatacttggatctggattggaggggattccctccctagtcaaaa...

Basic information

species Zea mays
transcript GRMZM2G121456_T01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121456_T02 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os03g19510.1 (Oryza sativa), 5'ss of exon 3
GCCCTACTTCCCAGTGGAGTCCGCGGCGGGGCAGGAGCGTGGGCCGTCGCCCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggcactggattgtgtaaagtgtttgacctccttagggcttgtttggttggatacttggatctggattggaggggattccctccctagtcaaaa
|||||||||||| |||||||  ||| |||||||||| || ||||| |||||||||||||||||||||||||||||||||||||| ||||| ||||||||||||||   ||||| ||||||   |   ||||       ||  ||   |||  ||  | |   ||  ||||  |    | |||                  
GCCCTACTTCCCTGTGGAGTATGCGTCGGGGCAGGAACGCGGGCCATCGCCCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGCCAGCTCTTCCAGCACgtacgggagcactagattgttgcacaagttta-----tttgtggagggttctgtgtgctgtctgactctgtgtgattgtggaacag--------------
















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|110519563|gb|EE023896.1|EE023896
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCCGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|149081623|gb|EE170768.2|EE170768
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AAAATTATTTCGG-GCGGAGGCCCCGTTGAGGATGAAATGGCCAAC
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATT-CGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAAC
EST: gi|211481382|gb|FL023994.1|FL023994
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|74237088|gb|DT645002.1|DT645002
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|78092088|gb|DV520462.1|DV520462
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|211481381|gb|FL023993.1|FL023993
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGC-AACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|19821991|gb|BQ048015.1|BQ048015
EST:     CCATGGTGATGGTGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCTGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|71436538|gb|DR817588.1|DR817588
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|148939986|gb|EC884717.2|EC884717
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|61119391|gb|DN560352.1|DN560352
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|211478511|gb|FL023987.1|FL023987
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|32913968|gb|CF018780.1|CF018780
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCTGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|149088221|gb|EE177331.2|EE177331
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|101399114|gb|EB821430.1|EB821430
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|78111070|gb|DV529467.1|DV529467
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|76919121|gb|DV167599.1|DV167599
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|71427481|gb|DR808531.1|DR808531
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|71445134|gb|DR826184.1|DR826184
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|74245787|gb|DT653701.1|DT653701
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|148939985|gb|EC884716.2|EC884716
EST:     GTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGGGGAGGGCCCG-TGAGGGATGATATGGCCAACATCAT
genomic: GTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGA-GGATGATATGGCCAACATCAT
EST: gi|78090189|gb|DV518563.1|DV518563
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|148938546|gb|EC882867.2|EC882867
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|19822147|gb|BQ048171.1|BQ048171
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCTGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|50338176|gb|CO533302.1|CO533302
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|101400189|gb|EB821914.1|EB821914
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|93282145|gb|EB674409.1|EB674409
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|76012850|gb|DT940020.1|DT940020
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|86472628|gb|DY238998.1|DY238998
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCATCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|211478510|gb|FL023986.1|FL023986
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|93282646|gb|EB674910.1|EB674910
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|148934818|gb|EC878864.2|EC878864
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|113702266|gb|EE679770.1|EE679770
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCTGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|101399344|gb|EB821545.1|EB821545
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|71307773|gb|DR790105.1|DR790105
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|211478514|gb|FL023990.1|FL023990
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCCGTTGAAGATGATATGGCCAACATCATG
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT
EST: gi|26455779|gb|CA827362.1|CA827362
EST:     CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCAC                         AGAATTATTCGGTGCGGAGGCCCTGTTGAGGATGATATGGCCAACATCATT
genomic: CCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggc ... ctctatgcagAGAATTATTCGGTGCGGAGGCCCCGTTGAGGATGATATGGCCAACATCATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCCCTACTTCCCAGTGGAGTCCGCGGCGGGGCAGGAGCGTGGGCCGTCGCCCATGGTGATGGAGCGGTTCCAGAGCGTCGTCAGTCAGCTTTTCCAGCACgtacgacggcactggattgtgtaaagtgtttgacctccttagggcttgtttggttggatacttggatctggattggaggggattccctccctagtcaaaa

- - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT