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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatgacttcattcaccgacctactttcctttttgttcaatttcgtttctcatatacttttgactaagcactcttgactattcattatgcttcaagttactgatttgaatatagttttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCCTCGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTGTTATCAATTG

Basic information

species Zea mays
transcript GRMZM2G110834_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g02890.1 (Oryza sativa), 3'ss of exon 6
gtatgatgacttcattcaccgacctactt-tcctttttgttcaatttcgtttctcatatacttttgactaagcactcttgactattcattatgcttcaagttactgatttgaatatagttttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCCTCGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTGTTATCAATTG---
     |||||| |||||||| || | ||| |||||||||||| ||||  |||  | || |  |     |  |||      | | ||    |||||||||||||||||||||||||||| ||| ||||||||||  ||||||||||||||||||| || |||||||| ||||||||||| ||||||||||||||| |||||||||||||||| ||||| ||||||||||   
---gtatgactccattcaccaacttgcttctcctttttgttctatttgatttaccttaaaactccagttctgca-----aagtcttggagatgcttcaagttactgatttgaatataggtttctctaggagATCCTTTTTGATGAGTTTGTTATTGCCCATATCCTTGGATGGTGGGGGAAGGCTATAATGATAAGAAACCAACCACTTTTATGGGTATTATCAATTGGCT

upper sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA20G25830.2 (Glycine max), 3'ss of exon 9
gtatgatgacttcattcaccgacctactttcctttttgttcaatttcgtttctcatatacttttgactaagcactcttgactattcattatgcttcaagttactgatttgaatatagtt--ttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCCTCGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTGTTATCAATTG
     |||| ||| |||||  |||||  ||    |||| | |  |||  | || | ||  |||||  |   | || |    ||||    ||    || |   ||||| | | |||  ||  | ||  |||||| | |||||||||| |||||| | |||||| |  | ||||||||||| ||||| ||| |||| || || || || ||| | ||||||||||||||||
---gtatgatttctttcac-aacctatgtt----tttgctta--ttctctcctaaaattattttg-ttcttcgctttatcatatttgg-atataacatggggctgatat-attatgcttcatctttcagGAGACACTTTTTGATGAATTTGTTTTAGCTCATGTTATTGGATGGTGGGGGAAGGCAATATTGATTCGTAATCAGCCCCTTCTTTGGGTGTTATCAATTG

upper sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA10G41430.1 (Glycine max), 3'ss of exon 7
gtatgatgacttcattcaccgacctactttcctttttgttcaatttcgtttctcatatacttttgactaagcactcttgactattcattatgcttcaagttactgatttga-atatagttttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCCTCGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTGTTATCAATTG
     |||| ||| |||||      || ||  ||||||   |  |||  | || | ||| |||||  |     || |    ||||    |     || |   || || |   || |    ||||  |||||| | |||||||||| |||||| | |||||| |  | ||||||||||| ||||| ||| |||| || || ||||| ||| | ||||||||||| ||||
---gtatgatttctttcaca-----acctttgtttttgccta--ttctctcctaaaatagttttg-ttctttgctttatcatatttgg-aaataacatggggcttatatattatgtttcatttttcagGAGACACTTTTTGATGAATTTGTTCTAGCTCATGTTATTGGATGGTGGGGGAAGGCAATATTGATTCGTAATCAACCCCTTCTTTGGGTGTTATCCATTG

upper sequence: GRMZM2G110834_T02 (Zea mays), 3'ss of exon 6
lower sequence: Vv01s0011g04370.t01 (Vitis vinifera), 3'ss of exon 7
gtatgatgacttcattcaccgacctactttcctttttgttcaatttcgtttct-catatacttttga-ctaagcactcttgactatt-cattatgcttcaag-ttactgatttgaatatagttttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCCTCGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTGTTATCAATTG
              |       |  ||  ||| ||   |||||  | |||| |  || | |   ||  |    ||  | | | |||   |||  |   ||||  | |||||||   |   ||| ||||||||| |   |||||||||| |||||| | ||||||||  | |||||||||||||||||||||||||| || || || || ||  | |||||| | |||||||
-------------gtatgatttctcacaatccattcacttcaaaattgtttgtgtatgttccactgttcctgacatacatcaatatgatattgggaggcaagacttctgattt--tttctgttgtttctagGAAACCCTTTTTGATGAATTTGTTGTGGCTCATATATTTGGATGGTGGGGTAAGGCTATAATGATTCGCAATCAGCCCCTCCTATGGGTGCTGTCAATTG

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|74240999|gb|DT648913.1|DT648913
EST:     GCCGCATATATGTACCTGACCATCCGAAAAGCAGGTTTAACAATGTTTAT                         GAGATAATTTTTGATGAGTTTGTTATCGCTCATATCC
genomic: GCCGCATATATGTACCTGACCATCCGAAAAGCAGGTTTAACAATGTTTATgtatgatgac ... ttttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actcttgactattcattatgcttcaagttactgatttgaatatagttttttctagGAGATAATTTTTGATGAGTTTGTTATCGCTCATATCCTCGGATGGTGGGGTAAGGCTATAATGATACGAAACCAACCACTTTTGTGGGTGTTATCAATTG
                            tactgat  putative branch site (score: 2)
                                             ttttttct  putative PPT
                                 atttgaatatagtttt  TA-rich tract