Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtagtaaaacatctttggtgcacttatcccaacagtttcaccatattctaatttttctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC

Basic information

species Zea mays
transcript GRMZM2G063253_T08
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os05g07670.1 (Oryza sativa), 3'ss of exon 6
gtgagtagtaaaacatctttggtgcacttatcccaac--agtttcaccatattctaatttttctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC
|| || ||| ||||| |||| |   |||||     ||   |||| | |  ||||| ||||| | ||| ||||  |||||||||||||| ||  | || |||||||||||||| |||||||||||||||||||||||||||||||||||||| |||||||| |||||||||||||||||||
gtaagcagtgaaacaactttcgaagacttactttgaccttgttttatctgattctgattttgcccttgtttcttatgcagTTTTTCATTGTATTATCGTGCTTGATATCTGTCTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACTTCTCCTGTCACTTACCAAGTCCTGGGCC

upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
lower sequence: AT1G06890.2 (Arabidopsis thaliana), 3'ss of exon 6
-----------------gtgagtagta--aaacatctttggtgcacttatcccaacagtttca---ccatattctaattttt-ctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC
                 | |  |  ||  |||| | ||   ||  ||| |  |  |  | ||    |   ||  |||    | ||  | | | |  ||||||| |||||||||||||| ||| | ||||| || || || ||||||||||| || ||||| || ||||| ||||||||||| || || || || || || |
gtgagactcaatttcccggggattctaccaaacttattaactgatcttcttgcttccatgtcgatcctgcatattaacgagtgcttctttgttgattgcagTTCTTCATCGTCCTGTCTTGCCTCATATCAGTCTCTGTAAACTTCAGCACATTTCTTGTCATTGGAAAAACATCTCCTGTCACATATCAGGTTCTAGGAC

upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
lower sequence: AT2G30460.1 (Arabidopsis thaliana), 3'ss of exon 7
--gtgagtagtaaaacatctttggtgcacttatcccaacagtttcaccatattctaatttttctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC
  | || |     || || | |||     |  ||   |  | |||  ||||||   |       ||| ||| | |||||||| ||||||||| |||| ||| | |||||||||||||| ||||||||||| || || || || ||||||||||||||||| ||||| || || || || |
gtgagaatgaagcaatatatgtggaatggtcttcattattgcttctacatatttacaaacacaccttgttt-gaatgcagTTCTTCATCGTCTTGTCCTGCCTCATATCTGTTTCAGTAAACTTCAGCACGTTTCTCGTCATTGGAAAGACATCTCCTGTCACTTATCAGGTTCTAGGAC

upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
lower sequence: Vv06s0004g07960.t01 (Vitis vinifera), 3'ss of exon 7
----------------------gtgagtagtaaaacatctttggtgcacttatcccaac----agtttcaccatattctaatttttctctta----------tttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC
                         | || |      | ||||||    || |  |       | |||| | |  |   ||||   ||| ||            ||   ||||| | ||||| || || || ||| ||||||||||||| || |||||||| || || || || || || |||||||||||||| || ||||| |||||||| |
gtgaggattgaaattttgataaaacattaatttcttctgtttggtttttttttttctttcctaaatttctctacttcaaaattcaactcctaaatctaatcacctcatttgcagGTCTTCATTGTTCTATCTTGCCTGATATCTGTTTCTGTAAACTTCAGTACATTTCTAGTTATTGGGAAGACATCTCCTGTAACATACCAGGTCCTGGGAC

upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
lower sequence: EFJ14247 (Selaginella moellendorffii), 3'ss of exon 5
gtgagtagtaaaacatctttggtgcacttatcccaacagtttcaccatattctaatttttctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC
                  |  |  ||    |   | | |  | |  | |  |   ||||| | |  || |   ||||| | |||||| |||| || |||||||| || ||||| |||||||||||||| |||||||| || || ||||| || || || |||||||||||| | ||||
-----------------gtaagcacatgctttttatccgcct-atgaaacgcc--tttttttttctttgcctctgcagCTATTCATCATCCTTTCTTGCTTGATTTCCGTTTCTGTGAACTTCAGCACATTCCTTGTTATAGGGAAGACGTCGCCGGTGACTTACCAAGTCTTAGGCC

upper sequence: GRMZM2G063253_T08 (Zea mays), 3'ss of exon 5
lower sequence: EFJ20116 (Selaginella moellendorffii), 3'ss of exon 5
gtgagtagtaaaacatctttggtgcacttatcccaacagtttcaccatattctaatttttctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC
                  |  |  ||    |   | | |  | |  | |  |   ||||| | |  || |   | ||| | |||||| |||| || |||||||| || ||||| |||||||||||||| |||||||| || || ||||| || || || |||||||||||| | ||||
-----------------gtaagcacatgctttttatccgcct-atgaaacgcc--tttttttttctttgcctttacagCTATTCATCATCCTTTCTTGCTTGATTTCCGTTTCTGTGAACTTCAGCACATTCCTTGTTATAGGGAAGACGTCGCCGGTGACTTACCAAGTCTTAGGCC

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|211483724|gb|FL457141.1|FL457141
EST:     TTTTGACTAACCAAAATGTCTTTGCTNTTAATTATACATCTCAAGTTGTG                         TTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACT
genomic: TTTTGACTAACCAAAATGTCTTTGCTTTTAATTATACATCTCAAGTTGTGgtgagtagta ... tcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcacttatcccaacagtttcaccatattctaatttttctcttatttcgcatgcagTTTTTCATCGTCCTGTCATGCTTGATATCTGTTTCAGTGAACTTCAGCACTTTCCTTGTGATCGGAAAGACATCTCCTGTTACTTACCAAGTCCTGGGCC
                          ttctaat  putative branch site (score: 2)
                          ttctaatttttctctt  CT-rich tract
                       atattctaatttttct  TA-rich tract