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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttttgttaagagaaccatctattatgccattcctagttctgtttcattagttctcacagctgtagttttagatataatcatatggtattgtagtttttgaaataaatacatagggattatgttaagtaaattgttctttagttctgacagatatattggcaaacacaaaaacagATTCCGTTGGCTCAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAACATATCAAGGCCGTTGAACCTCCATTTGATTACATTGTAGGAACTGACGT

Basic information

species Zea mays
transcript GRMZM2G013981_T03
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G013981_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os02g57330.2 (Oryza sativa), 3'ss of exon 4
gttttgttaagagaaccatctattatgccattcctagttctgtttcattagttctcacagctgtagttttagatataatcatatggtattgtagtttttgaaataaatacatagggattatgttaagtaaattgttctt--tagttctgacagatatattggcaaacacaa-aaacagATTCCGTTGGCTCAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAACATATCAAGGCCGTTGAACCTCCATTTGATTACATTGTAGGAACTGACGT
                                                                          | ||| |  ||||    ||||  || |  ||| |   | |   ||      |  || | |   ||  |||||||   |   || |      ||     ||||||  ||| | |||||  | || |||||||||||||||||||| |||||||| ||||| |  || ||||| |||||||| ||||||||  | |||||||| ||
--------------------------------------------------------------------------acaataa-gtggtgcc-tagtggtt-agttaagtttgtggaagtttctcataacaattggacgttgctagttctcctaacaat-tgattttacgtggcaaacagGCTCCATCGGCTCTGTCACCGTTGCAGAATTGGACTGGGGTAACAAAGATCATATAAGAGCTGTTGATCCTCCATTCGATTACATCATTGGAACTGATGT
















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|211407963|gb|FL261717.1|FL261717
EST:     AAATGTTGAACGGAACAGATCTTGGATCTCACAATCGAACCCCGACTCAG                         ATTCCGTTGGCTNCA-TTACAGTTGCAGAATTGGACTGGGGGGACAAAGAA
genomic: AAATGTTGAACGGAACAGATCTTGGATCTCACAATCGAACCCCGACTCAGgttttgttaa ... acaaaaacagATTCCGTTGGCT-CAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAA
EST: gi|51592994|gb|CV072140.1|CV072140
EST:     AAATGTTGAACGGAACAGATCTTGGATCTCACAATCGAACCCCGACTCAG                         ATTCCGTCGGCTCAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAAC
genomic: AAATGTTGAACGGAACAGATCTTGGATCTCACAATCGAACCCCGACTCAGgttttgttaa ... acaaaaacagATTCCGTTGGCTCAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAAC
EST: gi|211405412|gb|FL261716.1|FL261716
EST:     AAATGTTGAACGGWACAGATCTTGGATCTCACAATCGAACCCCGACTCAG                         ATTCCGTTGGCTCAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAAC
genomic: AAATGTTGAACGGAACAGATCTTGGATCTCACAATCGAACCCCGACTCAGgttttgttaa ... acaaaaacagATTCCGTTGGCTCAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAAC
EST: gi|211405411|gb|FL261715.1|FL261715
EST:     AATGTTGAACGGAACAGATTCTTGGATCTCACAATCGAACCCCGACTCAG                         AT-CCGTTGGCTC
genomic: AATGTTGAACGGAACAGAT-CTTGGATCTCACAATCGAACCCCGACTCAGgttttgttaa ... acaaaaacagATTCCGTTGGCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttaagtaaattgttctttagttctgacagatatattggcaaacacaaaaacagATTCCGTTGGCTCAATTACAGTTGCAGAATTGGACTGGGGGAACAAAGAACATATCAAGGCCGTTGAACCTCCATTTGATTACATTGTAGGAACTGACGT
                      ttctgac  putative branch site (score: 2)
       taaattgttcttta  TA-rich tract