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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatcttgttcttttatatttaattcacctacccaagatttaccttgtgctatgcttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC

Basic information

species Zea mays
transcript GRMZM2G063792_T07
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os12g27520.4 (Oryza sativa), 3'ss of exon 7
gtatatcttgttcttttatatttaattcacctacccaagatttaccttgtgctatgcttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC
|||||  |||||||| ||    || || ||||    |   |||     ||  | |  ||   |  ||    ||  |  |   |     |   |   |||  | || |||||  |      | ||| |||| |||||||  || |||||||| || ||||||| ||||||| |||||||||| |||||||| |||||||||||||| || ||||| || ||||| || |
gtatactttgttcttctac--ctatttgacct-tttagcctttttaacgtcttctttttacccggtttagctgattatgattcaacaattttatgttatctttctaatccttctacaatctctgctagGTTTCATCCCGTTCTCCAAAGGAAGGTTCCTATTTCAAGCAGCTGCCCAAGTCCAGTGCTATTAAGGTGATTGATTTTGGCAGCACAACATATGACCAGC

upper sequence: GRMZM2G063792_T04 (Zea mays), 3'ss of exon 7
lower sequence: AT4G24740.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatatcttgttcttttatatttaattcacctacccaagatttaccttgtgcta-tgcttgttcttttattgtgtattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC------
                                       || |  |   ||| | ||  |||    ||| ||||      ||     |     ||   ||     || |  | |||  | ||  ||  ||     |||| ||  | || ||| |  | ||||   ||     |||| || || ||||| || |||||||||||||| |||||||| |||||||| |  |      
-------------------------------------gtatatctcgaatgcaactgtgtgtgaccttaatgtggccaactatttaagtgctgaaggaat----ttggttgtgtttcctgat--gcagGG----GTCCCGATTACAAAGGGATGTATGCTAT---AAAAGAGTGCCTAAATCAAGTGCAATAAAGGTGATTGATTTTGGTAGCACAACTTATGAGCGCCAGGACC
















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|33104273|gb|CF064233.1|CF064233
EST:     GTACATTAAAGTGCCTGATTACAAA                         GTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAG
genomic: GTACATTAAAGTGCCTGATTACAAAgtatatcttg ... catttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAG
EST: gi|213175408|gb|FM189251.1|FM189251
EST:     AGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAA                         GTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAG
genomic: AGAACATTCTCCTTGTTTCTCCGGAGTACATTAAAGTGCCTGATTACAAAgtatatcttg ... catttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattggtagcgggggtagaaaaatatggtactgatcctcttttttcatttgccagGTCTCATCCCAATCCCCAAAGGAGGGGTCCTATTACAAGCAGTTGCCCAAGTCTAGTGCTATCAAGGTGATTGATTTCGGTAGCACTACTTATGATCAAC
                            tactgat  putative branch site (score: 2)
                                  tcctcttttttcattt  CT-rich tract
               tagaaaaatat  TA-rich tract