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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGCTTTTGAGCTTCCTGCCTCTCGGGTGATTCACACTGTTGGCCCTATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctcttcattttttttaaaaaaaatatctgtgctggttgctgaaccagtgaaaaactatcctgaactgcatgtgctaattgcag

Basic information

species Zea mays
transcript GRMZM2G062425_T02
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G062425_T03 (Zea mays), 5'ss of exon 4
lower sequence: LOC_Os03g21830.1 (Oryza sativa), 5'ss of exon 4
TGCTTTTGAGCTTCCTGCCTCTCGGGTGATTCACACTGTTGGCCCTATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaag-----ctctcttcatttttt---ttaaaaaaaatatctgtg-ctggttgctgaaccagtgaaa-aactatcctgaactgcatgtgctaattgcag
 || ||  |||||||||  || || ||||| ||||||||||| || ||||||||| |||||||||| |||||||| || ||||| || |||||   || ||     || |||  ||| | |    | | || || || ||||  ||  |||  || |||||||| |||| | | ||  |  ||||||||| |||||
AGCATTCAAGCTTCCTGTTTCCCGCGTGATACACACTGTTGGGCCCATATATGATATGGACAAGCAACCTGAGGTCTCCTTAAATAATGCCTACACgttagtcgtcctttctaaattgtatagtattacaagaaaatttgtggttgcctgcaaaatcagtgaaataactgttccga--ttgatgtgctaactgcag
















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|60346456|gb|DN213429.1|DN213429
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|60350894|gb|DN217867.1|DN217867
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|60340981|gb|DN207954.1|DN207954
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|211235601|gb|FL469488.1|FL469488
EST:     CTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: CTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|32916032|gb|CF020844.1|CF020844
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|60400550|gb|DN233357.1|DN233357
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|18654978|gb|BM499783.1|BM499783
EST:     AAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: AAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|211409605|gb|FL451596.1|FL451596
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|149058791|gb|EE156812.2|EE156812
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|30087019|gb|CB885227.1|CB885227
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|4646952|gb|AI622027.1|AI622027
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|71768330|gb|DR966267.1|DR966267
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|27769705|gb|CB042895.1|CB042895
EST:     AAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: AAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|60337208|gb|DN204181.1|DN204181
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|71760661|gb|DR958598.1|DR958598
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|18180255|gb|BM381465.1|BM381465
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|91874149|gb|EB404106.1|EB404106
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|29544033|gb|CB604413.1|CB604413
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|60347033|gb|DN214006.1|DN214006
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|12968348|gb|BG265294.1|BG265294
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|32855392|gb|CD995073.1|CD995073
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|71444605|gb|DR825655.1|DR825655
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|27576007|gb|CA998701.1|CA998701
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|20208345|gb|BQ134434.1|BQ134434
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|211448985|gb|FL452542.1|FL452542
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|76284272|gb|DV023840.1|DV023840
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|78073968|gb|DV502402.1|DV502402
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|60339297|gb|DN206270.1|DN206270
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|50322938|gb|CO518064.1|CO518064
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|88752056|gb|DY536197.1|DY536197
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|78544379|gb|DV621877.1|DV621877
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|8516517|gb|BE123242.1|BE123242
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|71775282|gb|DR973160.1|DR973160
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|32916033|gb|CF020845.1|CF020845
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|27521916|gb|CA989022.1|CA989022
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|30031764|gb|CB833615.1|CB833615
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|16927502|gb|BM080571.1|BM080571
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|60339706|gb|DN206679.1|DN206679
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAAGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
EST: gi|78118087|gb|DV536474.1|DV536474
EST:     ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGA                         AAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC
genomic: ATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctc ... ctaattgcagAAATAGCTTGAAGCTTGCTAAGGATAATGGCATTCAGTACATCGCATTCCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGCTTTTGAGCTTCCTGCCTCTCGGGTGATTCACACTGTTGGCCCTATATATGATTTGGACAAGCATCCTGAGGTGTCATTAAAGAAGGCCTATGAgtaagctctcttcattttttttaaaaaaaatatctgtgctggttgctgaaccagtgaaaaactatcctgaactgcatgtgctaattgcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG