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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcattgtgtttatatgccactcaattactcagcccagaataaaagataaactgtgggacgtcctaaatgcacacatttttctgttgccttatgctgtagATCTTCCATGGAGCTGACAATGATATTCTTTGGCTTCAAAGGGATTTTCATATTTATGTTGTGAATATGTTTGATACTGCTAAG

Basic information

species Zea mays
transcript GRMZM2G048819_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G048819_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os07g32890.1 (Oryza sativa), 3'ss of exon 3
ttcattgtgtttatatgccactcaatta-ctcagcccagaataaaagataaactgtgggacgtcctaaatgca--cacattt---ttctgttgccttatgctgtagATCTTCCATGGAGCTGACAATGATATTCTTTGGCTTCAAAGGGATTTTCATATTTATGTTGTGAATATGTTTGATACTGCTAAG
          | |  |||     |||   ||||||  |  ||    | |    | |      |  ||||||||    |||||   ||||     |||||     |||||||||||||||||||||||||| ||||||||||||| || || ||||||||||||||||||||||||||||||||||| |||
--agccaaaatcaattgctgtataatcgtctcagcagaagatctgtgttgctttct----tttattaaatgcagtttcatttaccttctccctacttatttgtcagATCTTCCATGGAGCTGACAATGATGTTCTTTGGCTTCAGAGAGACTTTCATATTTATGTTGTGAATATGTTTGATACTGCCAAG

upper sequence: GRMZM2G048819_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT2G32415.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------------------------------------ttcattgtgtttatatgccactcaattactcagcccagaataaaagataaactgtgggacgtcctaaatgcac------acatttttctgttgccttatgc-tgtagATCTTCCATGGAGCTGACAATGATATTCTTTGGCTTCAAAGGGATTTTCATATTTATGTTGTGAATATGTTTGATACTGCTAAG
                                                ||    |   |  ||||   | |   ||     |  | || |  |  ||  |      |  | |||  ||||       |||||  | ||| |  |  ||| | ||| | || || || |||||||| ||| || | ||||||||||| || || ||||| |||||||| ||||||||||||||||| |||
gtatattgttcagtgttagaatcttgtaacttaatttgtttcaaatttttggaagaagtcttatgtagcacttgtatgtttctgacaagatgatttagtcccccaaat-ttctatgtgcattttggaacattaatatgt-gattggtgcatctagGTGTTTCACGGGGCTGACAACGATGTTATCTGGCTTCAAAGAGACTTCCATATATATGTTGTTAATATGTTTGATACTGCCAAG
















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|78075397|gb|DV503831.1|DV503831
EST:     ATGTGATGGGCATTCTACGACCAGTGTTTGCCAATTCTTCTATCTGTAAG                         ATCTTCCATGGAGCTGACAATGATATTCTTTGGCTTCAAAGGGATTTTCAT
genomic: ATGTGATGGGCATTCTACGACCAGTGTTTGCCAATTCTTCTATCTGTAAGgtaacacatc ... tatgctgtagATCTTCCATGGAGCTGACAATGATATTCTTTGGCTTCAAAGGGATTTTCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gataaactgtgggacgtcctaaatgcacacatttttctgttgccttatgctgtagATCTTCCATGGAGCTGACAATGATATTCTTTGGCTTCAAAGGGATTTTCATATTTATGTTGTGAATATGTTTGATACTGCTAAG
                tcctaaa  putative branch site (score: 2)
                               tttttctgttgcctt  putative PPT
                            acattttt  TA-rich tract