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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAAAGTCAATAACATTGATGTAGTTTATACTCCATGGTACAATTTGAAGAAGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagctcattaactttttcttattcacaatgtttacagcaggattatgtacatatgcttttgtatgtatcttgacaaagtttatgtgctttatggat...

Basic information

species Zea mays
transcript GRMZM2G157332_T05
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G157332_T05 (Zea mays), 5'ss of exon 3
lower sequence: LOC_Os05g13440.1 (Oryza sativa), 5'ss of exon 4
TAAAGTCAATAACATTGATGTAGTTTATACTCCATGGTACAATTTGAAGAAGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgaga-gctcattaacttt--ttcttattcacaatgtttacagcaggattatgtacatatgcttttgtatgtatcttgacaaagtttatgt-gctttatggat
|||    |||||||||||||| |||||||| |||||||| ||| | |||||||| || || |||||||| || |||||||||||||||||| |||||||||||||| ||| |||  | ||  ||| | |        | ||    || || |  | ||| |  ||       |||       | |||| | | |  |||||   
TAAGACTAATAACATTGATGTGGTTTATACACCATGGTATAATCTAAAGAAGACTCCATCCATGGATGTGGGTCAAGTTGGTTTTCACAACTCTAAATTGgtgagaagcttatttcccttacttcctgtgttaggcatgtaatttagtataacttgcatttatttgaacgcttatac-atttaggtttgtctagtgttatg---

upper sequence: GRMZM2G157332_T05 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA04G08530.3 (Glycine max), 5'ss of exon 4
TAAAGTCAATAACATTGATGTAGTTTATACTCCATGGTACAATTTGAAGAAGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagct----catt---aactttttcttattca--caatgtttacagcaggattatgtacatatgcttttgtatgtatcttgacaaagtttatgt-gctttatggat-----------------------------------------------
|||||| || ||  | ||||| ||||| || || ||||  ||||| ||||| ||  ||||||||||||| ||||||||||||||||||||| | ||| ||||||   ||    ||||   | ||||| | |||||   || | |||    |  | |  | |  || |    || | ||| | || |||  |  || || | |  |||| |                                               
TAAAGTGAACAATGTCGATGTTGTTTACACACCCTGGTCTAATTTAAAGAAAACTGCTTCAATGGATGTTGGCCAAGTTGGTTTTCACAACTCAAAAATGgtgatttcttttacatttggatcttttccatattctttcagtttttttttccagttcttttttattttgcctt-tttgttttttcacagtgggtaggtagatgaatggttgagcttctgttttcagagtatcattttctggttttcatgtattttag

upper sequence: GRMZM2G157332_T05 (Zea mays), 5'ss of exon 3
lower sequence: GLYMA06G08640.1 (Glycine max), 5'ss of exon 3
TAAAGTCAATAACATTGATGTAGTTTATACTCCATGGTACAATTTGAAGAAGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagctcattaactttttcttattcacaatgtttacagcaggattat---gtacatatgcttttgtatgtatcttgacaaagtttatgt-gctttatggat-----------------------------------------------
|||||| || ||  ||||||| ||||| ||||| ||||  ||||| ||||| ||  ||||||||||||| || |||||||||||||||||| | ||| ||||||    || |  ||||     | ||    ||  || ||      || |   || | |   ||||||  | | | || |||  |  |  || | |  |||| |                                               
TAAAGTGAACAATGTTGATGTTGTTTACACTCCCTGGTCTAATTTAAAGAAAACTGCTTCAATGGATGTTGGGCAAGTTGGTTTTCACAACTCAAAAATGgtgaattttcttacacttagatattttgcgtattctttcactttttttttccagttcttcgtcttttgccttttttttcacagtgggtgggtagatgaatggttgagcttccgttttcagagtatcattttctggttttcgtgtattttag

upper sequence: GRMZM2G157332_T05 (Zea mays), 5'ss of exon 3
lower sequence: Vv04s0008g03810.t01 (Vitis vinifera), 5'ss of exon 3
TAAAGTCAATAACATTGATGTAGTTTATACTCCATGGTACAATTTGAAGAAGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagc--tcattaactttttctta----ttcacaatgtttacagcaggattatgtacatatgcttttgt-atgtatcttgacaaagtttatgtgctttatggat
 || || || ||  |||| || || || ||||||||| ||||| ||||||| ||  |||| |||||||| ||||||||||||||| ||||  | ||| |||||||     | |||  ||| | ||      ||  |||  ||||   |    |  ||  |||     |     ||  ||  |||   ||||| ||||||| ||  | 
CAAGGTGAACAATGTTGACGTCGTATACACTCCATGGCACAATCTGAAGAAAACTGCTTCTATGGATGTTGGCCAAGTTGGTTTTTACAATTCAAAAATGgtgagcttctttattttcttctgctctgtgctttgcaacttttatttctttttggtgagcatgcatatgaaagatagatactgatgtagtttttgtgcttaatttag

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|149109676|gb|EE293462.2|EE293462
EST:     GACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCCTAAATTG                         GTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAAATTGTGAACCGCTTG
genomic: GACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCC-TAAATTGgtgagagctc ... ttttttgaagGTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAGATTGTGAACCGCTTG
EST: gi|211490912|gb|FK946181.1|FK946181
EST:     AGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTG                         GTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAGATTGTGAACCGCTTG
genomic: AGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagctc ... ttttttgaagGTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAGATTGTGAACCGCTTG
EST: gi|60399482|gb|DN232294.1|DN232294
EST:     AGACGCCTTCAATGGATGTGGGCCAAGTTGGTTTTCACAACCCTAAATTG                         GTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAGATTGTGAACCGCTTG
genomic: AGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagctc ... ttttttgaagGTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAGATTGTGAACCGCTTG
EST: gi|32824357|gb|CD964079.1|CD964079
EST:     AGACGCCTTCAATGGATGTGGGCCAAGTTGGTTTTCACAACCCTAAATTG                         GTTCGCACTATTA
genomic: AGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagctc ... ttttttgaagGTTCGCACTATTA
EST: gi|32910716|gb|CF015528.1|CF015528
EST:     AGACGCCTTCAATGGATGTGGGCCAAGTTGGTTTTCACAATCCTAAATTG                         GTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAGATTGTGAACCGCTTG
genomic: AGACCCCTTCAATGGATGTAGGCCAAGTTGGTTTTCACAACCCTAAATTGgtgagagctc ... ttttttgaagGTTCGCACTATTAAAGTGGAAAAGAGGATCAATGAGATTGTGAACCGCTTG