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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagagcatgcccaatcttcattcctaactgcatgcgatgcctgattcacgcgcgccttcttttctatctaaaagtaaactactattgtgcagaaaaattcagtctgcttgtcttgtgctaatttgttcactaccttttgctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAGTAATGAAATGGCTGGGATATATTCAGCCATCTTATTTACCATTACCAGA

Basic information

species Zea mays
transcript GRMZM5G823629_T02
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM5G823629_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os02g40090.4 (Oryza sativa), 3'ss of exon 2
gtaagagcatgcccaa--tcttcattcctaactgcat-----gcgatgcctgattcacgcg-cgccttcttttctatctaaaagtaaactactattgtgcagaaaaattcagtctgcttgtcttgtgctaatt-tgttcactaccttttgctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAGTAATGAAATGGCTGGGATATATTCAGCCATCTTATTTACCATTACCAGA
|||||| |||||   |  || ||| || |   || ||        ||||||  | | | || |   |   |   |     |||   |||||   |||||||| |||   ||||| | || | ||||||||||  |||   | |   | || |  | ||||||||||| |||||||| | ||||||||||  |||||||||||||| ||||||||||||||| ||||| ||||||||||||| ||||||||||| |||||
gtaaga-catgctataattcctcactcgtggttgaattgtcaagaatgccttgtccgcacgtcttatggatagttggactaaaccgaactatcgttgtgcagcaaa--ccagtcagatt-ttttgtgctaatgatgtgttccattgtgtgtttgtgcagCTACAACATTGACTGGATTGCATTTTGCAACCACAACCTTGATGACATTAGTAATGAAATGGTTGGGACATATTCAGCCATCCTATTTACCATTGCCAGA

upper sequence: GRMZM5G823629_T03 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g12490.1 (Oryza sativa), 3'ss of exon 2
gtaagagcatgcccaatcttcattcctaactgcatgcgatgcctgattcacgcgcgccttcttttctatctaaaagtaaactactattgtgcagaaaaattcagtctgcttgtcttgtgctaatttgttcactaccttttgctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAGTAATGAAATGGCTGGGATATATTCAGCCATCTTATTTACCATTACCAGA
                     |     || ||     | |   | ||| || |     |    |    |  |||  | ||    ||     |  |   | | |     | || ||||| ||||| ||        || |||||  ||||||||||||| |||||||||| ||||||||||  || || |||||||| ||||||||||||||||||||||||||||| || || || |||||| | |||||
-------------------gtacgataaattgataatgctttattatttactcatatgtgtgatcacttggaaagatgaatctgtaacaaactcagctactgaac--acatg-cttgtactaatatgggggtg--ctattgcttgtacagCTACAACATTGACTGGACTGCATTTTGCAACCACGACTTTGATGACATTAGTAATGAAATGGCTGGGATATATTCAACCGTCCTACTTACCAGTGCCAGA
















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|78081629|gb|DV510041.1|DV510041
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACTTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|78079408|gb|DV507820.1|DV507820
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|211496862|gb|FL065359.1|FL065359
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|76280570|gb|DV020138.1|DV020138
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|211496860|gb|FL065357.1|FL065357
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|71445237|gb|DR826287.1|DR826287
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|76281274|gb|DV020842.1|DV020842
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|78111635|gb|DV530032.1|DV530032
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|50328555|gb|CO523681.1|CO523681
EST:     TATCATCATGGTCAACAAAGCCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|211496859|gb|FL065356.1|FL065356
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|211496857|gb|FL065354.1|FL065354
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGMCAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
EST: gi|211496858|gb|FL065355.1|FL065355
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACT
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACT
EST: gi|91051408|gb|EB161826.1|EB161826
EST:     TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTG                         CTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG
genomic: TATCATCATGGTCAACAAAGGCTTAATGGCGACTCATGGCTTTAGTTTTGgtaagagcat ... gctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaaattcagtctgcttgtcttgtgctaatttgttcactaccttttgctcctacagCTACAACACTGACTGGACTTCATTTTGCAATGACAACCTTGATGACGTTAGTAATGAAATGGCTGGGATATATTCAGCCATCTTATTTACCATTACCAGA
                      tgctaat  putative branch site (score: 2)
                                    ctaccttttgctcct  putative PPT
                         taatttgtt  TA-rich tract