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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AACCCAAGACTATCATGTTTTGGTCTGATGAAGAACAGCCGTGATGGAAAGAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgccacacgctagcaatagtatccatgaaacatttttgggaatgtgcctcttcatttgttttgaactgttatctgttctgcacctgcag

Basic information

species Zea mays
transcript GRMZM2G121826_T01
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G121826_T01 (Zea mays), 5'ss of exon 5
lower sequence: LOC_Os03g61010.1 (Oryza sativa), 5'ss of exon 5
AACCCAAGACTATCATGTTTTGGTCTGATGAAGAACAGCCGTGATGGAAAGAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgccacacgctagcaatagtatccatgaaacatttttgggaatgtgcctcttcatttgttt-tgaactgttatctgttctgcacctgcag-----
||||| ||||| || || || |||||||||||||||||| | ||||| |||||||| ||||| |||||||| ||||||||||||||||| |||||||| ||||  |||    ||  | |||||   | |   ||  |  || |        ||  | || |||||||  ||     | ||    |  | || || |      
AACCCCAGACTGTCGTGCTTCGGTCTGATGAAGAACAGCAGGGATGGGAAGAGCTATAGTACCAATTTGGCTTTCACGCCTCCTGAGTACCTTAAGACTGgtatgtgttgtgcatacaagcaagtttttttctgtga-gttatgcatttcatgaatttt-atttgttaatgtttgatcatgaagtaaggacttgtaatatga

upper sequence: GRMZM2G121826_T01 (Zea mays), 5'ss of exon 5
lower sequence: PP1S122_66V6.1 (Physcomitrella patens), 5'ss of exon 5
AACCCAAGACTATCATGTTTTGGTCTGATGAAGAACAGCCGTGATGGAAAGAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgta--aatgtgccacacgcta-gcaatagtatccatgaaacatttttgggaatgtgcctcttcatttgt----tttgaactgttatctgttctgcacct-gcag
 | ||  | || || |||||||| || ||||||||||| || |||||||| ||||| ||||| ||| |||||| ||| || ||||| ||  | |  || ||||   |  | |   | | |  |    | | |  ||  |||| ||| |  | |||  || |  |||||     ||   ||  || |  || || ||  | ||||
GATCCGCGCCTCTCTTGTTTTGGCCTCATGAAGAACAGTCGCGATGGAAAAAGCTATAGTACCAATCTGGCCTACACTCCCCCTGAATACTTAAGAACTGgtaccgaaatcctgaatgttttgttggattgtttattgaacaattt-gttattgttactttcaatttgcatcattctgacgattcttggtacttcattttgcag

upper sequence: GRMZM2G121826_T01 (Zea mays), 5'ss of exon 5
lower sequence: PP1S156_133V6.1 (Physcomitrella patens), 5'ss of exon 5
AACCCAAGACTATCATGTTTTGGTCTGATGAAGAACAGCCGTGATGGAAAGAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgta----aatgtgccacacgctagcaatagtatccatgaaacatttttgggaatgtgcctcttcatttgttttgaactgttatctgttctgcacctgcag-------------------------------------------
 ||||| | || || |||||||| || |||||||||||| | ||||| || |||||||| || ||| |||| | ||| |||||||||||  | |  |||||||    |  ||  | | |  |    || | ||   |||   |    ||| |||  ||   |||  || | || ||    |   ||         ||||                                            
GACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGGAAAAGCTACAGCACCAATCTGGCTTACACTCCTCCTGAGTACTTAAGAACAGgtatcccacggtttccctctttctggatcgaatatttgagcaacc--tggaaattagcaatttctattatgttaaatgtatgcatgcataatgtatgcatgcttctctttggtacgtgacaaatgtcataagagggtttgcag

upper sequence: GRMZM2G121826_T01 (Zea mays), 5'ss of exon 5
lower sequence: PP1S9_348V6.1 (Physcomitrella patens), 5'ss of exon 5
AACCCAAGACTATCATGTTTTGGTCTGATGAAGAACAGCCGTGATGGAAAGAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgt-------gccacacgctagcaatagtatccatgaaacatttttgggaatgtgcctcttcatttgttttgaactgttatctgtt--ctgcacctgcag-------------------------------------------------------------------
 ||||| | || || |||||||| || |||||||||||| | |||||||| |||||||| || |||||||| | ||| |||||||||||  | |  |||||| ||          | ||    || | || ||  |    |  | ||  | ||  |  |   | ||  | |   |   |  | | |    |  ||    |    |                                                                   
GACCCACGTCTCTCCTGTTTTGGGCTCATGAAGAACAGCAGAGATGGAAAAAGCTACAGCACCAATTTGGCTTACACTCCTCCTGAGTACTTGAGAACAGgttaacaactttttgggcatcttctgggaagagcttgtgaggga-atggtgggttagctatatttttgtcttcgtaagatcgatgttcactgcctaagtcaatcggtcgaggaaccctggaactcccgtgattctgtttggtcagtgacggtcatttttcgatattttgcag

upper sequence: GRMZM2G121826_T01 (Zea mays), 5'ss of exon 5
lower sequence: PP1S178_86V6.1 (Physcomitrella patens), 5'ss of exon 5
------AACCCAAGACTATCATGTTTTGGTCTGATGAAGAACAGCCGTGATGGAAAGAGCTACAGTACTAATTTGGCCTTCACGCCTCC-TGAGTATCTTAAGACAGgtaaatgtgccacacgctagcaatagtatccatgaaa-------catttttgggaatgtgcct----cttcatttgttttgaactgttatctgttctgcacctgcag------------------------------------
       | ||| | || || || || || || |||||||||||||  |||||||||||||||||||| || ||||| | ||| || || ||||||  | |  || |||||    | |  | ||| |  |  ||||    | ||       |||| ||  | |  | ||      | |     ||   | | |   |   ||  | |     |                                     
GAGGGGGATCCACGTCTCTCCTGCTTCGGCCTCATGAAGAACAGCCAAGATGGAAAGAGCTACAgtaccaacttggcatacacccccccatgagtacttaagaactggtaacgaagtctgaagcttggtaatgtatttgcgcaattctggacattattacggacctacccaaaattaccaacattcaaagcagccctggatttagtatgcttactttggattcctgagattcttgtattcaaatttgcag

upper sequence: GRMZM2G121826_T01 (Zea mays), 5'ss of exon 5
lower sequence: EFJ20301 (Selaginella moellendorffii), 5'ss of exon 4
AACCCAAGACTATCATGTTTTGGTCTGATGAAGAACAGCCGTGATGGAAAGAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgccacacgctagcaatagtatccatgaaacatttttgggaatgtgcctcttcatttgttttgaactgttatctgttctgcacctgcag
 | ||  | || || ||||| |||||||||||||||||||| || || |||||||| || || || ||||| |  || |||||||| ||  |    |||||||||  |  |   |  | |  |   |    ||  ||   |||      | |   | | ||                                   
GATCCGCGCCTCTCTTGTTTCGGTCTGATGAAGAACAGCCGAGACGGCAAGAGCTATAGCACGAACTTGGCATATACACCTCCTGAATACTTGCGAACAGgtaaagctctcgtgcctttgtcaccttgcgtattcaaagcttt----gttttctgtttgcag----------------------------------

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|149103589|gb|EE288989.2|EE288989
EST:     GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAG                         GCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG
EST: gi|71302365|gb|DR787300.1|DR787300
EST:     GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAG                         GCAGAGTAAGTCCTGAGAGTGTGGTTTACGGTTTTGGCACTGTCTTGCTT
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTT
EST: gi|67034938|gb|CO463471.1|CO463471
EST:     GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTA-GACAG                         GCAGAAG-AAGTCCTGAAAGCGTGGTT-ACAGTTTTGGCACTGCCTTGCTT
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGA-GTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTT
EST: gi|149012049|gb|EE042465.2|EE042465
EST:     GAGCTACAGTACTAATTTGGCCTTCCCGCCTCCTGAGTATCTTAAGACAG                         GCAGAGTAAGTCCTGAGA
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGAGTAAGTCCTGAGA
EST: gi|9952364|gb|BE638947.1|BE638947
EST:     GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAG                         GCAGAGTAAGTCCTGAGA
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGAGTAAGTCCTGAGA
EST: gi|9952536|gb|BE639119.1|BE639119
EST:     GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAG                         GCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG
EST: gi|148982427|gb|EE028311.2|EE028311
EST:     GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAG                         GCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG
EST: gi|148945740|gb|EC891020.2|EC891020
EST:     GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAG                         GCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG
genomic: GAGCTACAGTACTAATTTGGCCTTCACGCCTCCTGAGTATCTTAAGACAGgtaaatgtgc ... gcacctgcagGCAGAGTAAGTCCTGAGAGTGTGGTTTACAGTTTTGGCACTGTCTTGCTTG