Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgtttaatgattactggctttctgcaaactcttcgagtaactctttgtactgctttgctttacgttttttatatttctctagaaaagtactgaag...

Basic information

species Zea mays
transcript GRMZM2G391936_T01
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 6
lower sequence: LOC_Os03g52460.1 (Oryza sativa), 5'ss of exon 10
GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgtttaatgattactggctttctgcaaactcttcgagtaactctttgtactgctttgctttacgtttt-ttatat-ttctctagaaaagtactgaag
|| |||||||||||||||||||||||||| || |||||||| || || |||||||| || || ||| ||||||||||||||||| |  |||| | ||       |  |     |  | |       |  ||| ||   || |  |  |  | |   | ||    ||  | |    ||||  | 
GCATATCTTTTCAATGATTACTGGGAAGACATAGGAACTATAAAATCATTCTTTGAAGCCAATCTTTCTCTTGCTGAACAGgtatgc-tttactaatacaaaattgccattttatccgtattcctgcagtttatatccctctaataaatatgtaactgtacacactgcaaattgatacttta-

upper sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA07G38820.2 (Glycine max), 5'ss of exon 10
GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgtttaatga--ttactggctttctgcaaactcttcgagtaactctttgtactgctttgctttacgttttttatatttctctagaaaagtactgaag
|||||||| |||||||||||||||||||| || || ||||| |  || |||||||||||||| ||||| ||  |||| || ||  ||||  ||| |  ||  ||   |||    |  |    | ||     |   || |  || | |  | | || |  ||    |  | | ||| | |||| 
GCTTATCTATTCAATGATTACTGGGAAGACATAGGTACTATCAGATCATTCTTTGAGGCAAATCTTGCCCTCACTGAGCATgtgagtgtcaaatcaccttgttgagcttcgatgatttgaatgtgttgagttcattagtaattag-tggaaggttgtgctagaggtaaacataagaaatgaa-

upper sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 6
lower sequence: GLYMA17G01900.1 (Glycine max), 5'ss of exon 10
GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgtttaatga--ttactggctttctgcaaa------ctcttcgagtaactctttgtactgctttgctttacgttttttatatttctctagaaaagtactgaag---------------------------------------------------------------------------
|||||||| |||||||||||||||||||| || || ||||| |  |||||||| |||||||| ||||| ||  |||| || ||  ||||  ||| |  | | | |   |  | | |        ||    ||||   |  | | ||  ||   |||     || | |    |    ||   ||   | |                                                                           
GCTTATCTCTTCAATGATTACTGGGAAGACATAGGGACTATCAGATCCTTCTTCGAGGCAAATCTTGCCCTCACTGAGCATgtgagtgtcaaatcacctcattagtaattagtagaaggtcgtgctagaggtaaacataagaaatgaatttaattattaagttcaaaaacttagtcaactataagcatgtatcatttcatctttttcattttaagatctaaagtcttattttcccagaaaagcttacttctttaattttttcag

upper sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 6
lower sequence: PP1S347_12V6.1 (Physcomitrella patens), 5'ss of exon 8
GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgta---cgtgtttaatgattactggctttctgcaaactcttcgagtaactctttgtact------gctttgctttacgttttttatatttctctagaaaagtactgaag---------------------------------------------------------------------------------
|| ||| | |||||||| |||||||| ||||||||||| || ||||| |||||||| || ||  | |||||| ||   ||||||   | |   |   | | |  |   || |  |        |   |||| | |||| |        | ||      ||   ||  ||| |  ||| |   || | ||                                                                                  
GCATATTTGTTCAATGACTACTGGGAGGATATTGGAACCATCAAGTCTTTCTTTGATGCTAATTTAGCTCTTACTTCTCAGgtattgccttcctctcgctcatagatgtttttta---ctgaaggaaaactgtgtgtagtcaatcaattatgtaacctgtgaattgaattacattaggatcatattaaacttgaatataggtttgtctctctacatttttcacttctcaatcgattcttacacagtgttgtgtgtgttcgtctttccacag

upper sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 6
lower sequence: PP1S389_5V6.1 (Physcomitrella patens), 5'ss of exon 9
GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgtttaatgattactggctttctgcaaactcttcgagt-aactctttgtactgctttgctttacgtttt---ttatatttctcta-gaaaagtactgaag----------------------------
|| ||  | || ||||| || ||||||||||||||||| ||||||||||||||||| || ||  | |||||  |||  |||||| |       || ||  |     | |||    ||   || |  | |  | |  ||||||||    || |      ||||  ||||| | |   ||| || ||                             
GCGTACTTGTTTAATGACTATTGGGAAGATATTGGAACCATTAAGTCCTTCTTTGATGCCAATTTAGCTCTCACTGCTCAGgtatggcacctttgttttataaaaatatgcttggtcagtgatttgagtactgggtctgctttgtaggacatgaaggattattattctccatgtggagttctaaaatgttttcttctctgttgtcttcctgcag

upper sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 6
lower sequence: EFJ23417 (Selaginella moellendorffii), 5'ss of exon 11
GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgtttaatgattactggctttctgcaaactcttcgagtaactctttgtactgctttgctttacgttttttatatttctctagaaaagtactgaag
|| ||||| |||||||| ||||||||||| ||||||||||||||||| || ||||| || || || |||||  |||  ||||||  ||  |   || |  |||   |  |||      |  |  |  |  |  |||          |   |||                            
GCGTATCTCTTCAATGACTACTGGGAAGACATTGGAACTATTAAGTCGTTTTTTGACGCTAATCTCGCTCTCACTGCTCAGgta-atgcctttggagt--tggaacttcgcag-----ttaaacacttactcatacaaaaaaaaaatctctttgcag------------------------

upper sequence: GRMZM2G391936_T01 (Zea mays), 5'ss of exon 6
lower sequence: EFJ25399 (Selaginella moellendorffii), 5'ss of exon 10
GCTTATCTTTTCAATGATTACTGGGAAGATATTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgtttaatgattactggctttctgcaaactcttcgagtaactctttgtactgctttgctttacgttttttatatttctctagaaaagtactgaag
|| ||||| |||||||| ||||||||||| ||||||||||||||||| || ||||| || || || |||||  | |  ||||||  ||  |   || |  |||   |  |||      |  |  |  |  |  |||           |  | ||||  |                      
GCGTATCTCTTCAATGACTACTGGGAAGACATTGGAACTATTAAGTCGTTTTTTGACGCTAATCTCGCTCTCACCGCTCAGgta-atgcctttggagt--tggaacttcgcag-----ttaaacacttactcatacaaaaaga---aaactcttttgcag---------------------

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|13126505|gb|BG317075.1|BG317075
EST:     TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTA
genomic: TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTA
EST: gi|211232745|gb|FL322840.1|FL322840
EST:     TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
genomic: TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
EST: gi|110195335|gb|EC877232.1|EC877232
EST:     TTGGAACTATTAAGTCTTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
genomic: TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
EST: gi|71429962|gb|DR811012.1|DR811012
EST:     TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
genomic: TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
EST: gi|71323466|gb|DR798382.1|DR798382
EST:     TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
genomic: TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
EST: gi|50335821|gb|CO530947.1|CO530947
EST:     CTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
genomic: CTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
EST: gi|31362917|gb|CD447274.1|CD447274
EST:     TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
genomic: TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
EST: gi|78103575|gb|DV522003.1|DV522003
EST:     TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAG                         CCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG
genomic: TTGGAACTATTAAGTCCTTCTTTGAGGCAAACCTTGCTCTTGCTGAACAGgtacgtgttt ... aactatgcagCCTCCAAGGTTCAGTTTCTACGATGCTGACAAACCAATGTATACATCACGG