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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttatttttgaaaattatttcaccatatttgtactctggcctccagactgtggcacaatactcaagatttacttttctgatattaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAAGAAATGGTTACCGAAATTATGTTTGATCTGAGAGCTAGTGGCCAAAGTT

Basic information

species Zea mays
transcript GRMZM2G153704_T02
intron # 8
splice site 3'
intron type U2

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|60400456|gb|DN233263.1|DN233263
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|32832104|gb|CD971782.1|CD971782
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|61119088|gb|DN560049.1|DN560049
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|67035008|gb|CO463541.1|CO463541
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|60339583|gb|DN206556.1|DN206556
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|67037358|gb|CO464198.1|CO464198
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|32933856|gb|CF038668.1|CF038668
EST:     TGGCTGTAGGAATGGCCTCTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|7844519|gb|AW787741.1|AW787741
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CANGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|211050167|gb|FL124868.1|FL124868
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|78179345|gb|DV549718.1|DV549718
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|7844129|gb|AW787332.1|AW787332
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         C-AGG-AAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|32847646|gb|CD987327.1|CD987327
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|32835079|gb|CD974757.1|CD974757
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
EST: gi|22545719|gb|BU098078.1|BU098078
EST:     TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAG                         CAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA
genomic: TGGCTGTAGGAATGGCCTTTTCGCCTGAAAGCCCTCGTTGGCTATTCCAGgtttattttt ... ttaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggcctccagactgtggcacaatactcaagatttacttttctgatattaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAAGAAATGGTTACCGAAATTATGTTTGATCTGAGAGCTAGTGGCCAAAGTT
                                           tattaac  putative branch site (score: 1)
                                   ttttctgatattaa  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtttatttttgaaaattatttcaccatatttgtactctggcctccagactgtggcacaatactcaagatttacttttctgatattaactgcagCAAGGAAAGGTTACTCAAGCAGAATTAGCTGTAAAAAGACTGTATGGAAAAGAAATGGTTACCGAAATTATGTTTGATCTGAGAGCTAGTGGCCAAAGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT