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'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtctgaaactatttttgttaccatctttctggaacttacttcatgttcatgggtacatcttataataggtgcttatgttcgttgcagGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTATCATATCCTGTTACCAATGGCATTGTTCAAAATTGGGATGACATGGGCC

Basic information

species Zea mays
transcript GRMZM2G342386_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os08g28190.1 (Oryza sativa), 3'ss of exon 2
gtctgaaa-ctatttttgttaccatctttctggaacttactt------catgttcatgggtacatcttataataggtgcttatgttcgttgcagGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTATCATATCCTGTTACCAATGGCATTGTTCAAAATTGGGATGACATGGGCC
|||||||| | || | | |     | ||||||| | |  ||         | |   |  ||||| |||||||| | || || |||||   |||||||||||| |||||||| ||||||||||||||||| ||||||||||| ||||||||||||||||| ||||| |||||||||| ||||||||| |||||||
gtctgaaatcaatgtctatctttgtgtttctggcattccctcattctgtctctctctcagtacaccttataattg-tgattgtgttccacgcagGATATTGTGGTTGGAGCGGCTTGTGCTGACTTGAGGCATCAACTTGACGTATCATATCCTGTTACAAATGGGATTGTTCAAAGTTGGGATGATATGGGCC

upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA16G05780.1 (Glycine max), 3'ss of exon 2
------------------------------------------------gtctgaaactatttttgttaccatctttctggaacttacttcatgttcatgggtacatcttataataggtgcttatgttcgttgc--agGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTATCATATCCTGTTACCAATGGCATTGTTCAAAATTGGGATGACATGGGCC
                                                 |    |  | || || ||   || | |    |   |   |  || | |||     | |||| | | |    || |||    |||  |||||||||||||||||| ||  ||||| |||||| | ||||| |||||| |||| |||||||| | ||| |||||||| ||||| |||||||| ||| |||
gtatatatcccaaacccaataattcactaagaagtggttgttgttattcttatgacttgttattattgttatttgttattattatggctt-tgattatgatatgaacttagattggtacattgtgtgttgtgcttagGATATTGTTGTTGGAGAAGGGTGTGCAGACTTGCGGCATCAGCTTGATATATCTTATCCTGTGAACAACGGCATTGTGCAAAACTGGGATGATATGTGCC

upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA19G26630.1 (Glycine max), 3'ss of exon 2
------------------------------------------------gtctgaaactatttttgttaccatcttt-ctggaacttacttcatgtt-----catgggtacatcttataataggtgcttatgttcgttgcagGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTATCATATCCTGTTACCAATGGCATTGTTCAAAATTGGGATGACATGGGCC
                                                |  ||  | |||| |  |||  ||  ||  ||  ||||   | ||| |     | | | |   |  | |     ||| || ||||   |  |||||||||||||||| | ||  ||||| |||||| | ||||| |||||| |||| |||||||| | |||||||||||| ||||| |||||||| ||| | |
gtatatcccaaacccaataattcactattaaaccatattataagaagtggttgttattattgtgattattattattattgtgactttgattatgatatgaacttagattggttctttgtgttgtg-ttgtgttgtgtttagGATATTGTTGTTGGTGAAGGGTGTGCAGACTTGCGGCATCAGCTTGATATATCTTATCCTGTGAACAATGGCATTGTGCAAAACTGGGATGATATGTGTC

upper sequence: GRMZM2G342386_T02 (Zea mays), 3'ss of exon 2
lower sequence: EFJ22040 (Selaginella moellendorffii), 3'ss of exon 2
gtctgaaactatttttgttaccatctttctggaacttacttcatgttcatgggtacatcttataataggtgcttatgttcgttgcagGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTATCATATCCTGTTACCAATGGCATTGTTCAAAATTGGGATGACATGGGCC
                             |  |  || ||||    |||    |   | ||        |  | ||||  |  |||||| || ||||| || |  || ||| | ||  | |||||||| ||||| ||||| ||||| || | |||||||||||| |||| |||||| || ||||| |
----------------------------gtatagtttgcttcg---tcaaatttttcttttcgttcttttaatcatgtaagaggcagGACATAGTTGTGGGGGATGCGTGTACAGAACTAAGACATCAGCTTGAGGTATCGTATCCGGTGAGCAATGGCATTGTACAAAGTTGGGAAGATATGGGGC

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|83279225|gb|DV943233.1|DV943233
EST:     GACGACCGCTACTTCGCTATGAGGAGTCACTTCAGGAACAAGAATTGACG                         GATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTA
genomic: GACGACCGCTACTTCGCTATGAGGAGTCACTTCAGGAACAAGAATTGACGgtctgaaact ... ttcgttgcagGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTA
EST: gi|4572894|gb|AI586543.1|AI586543
EST:     GACGACCGCTACTTCGCTATGAGGAGTCACTTCAGGAACAAGAATTGACG                         GATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTA
genomic: GACGACCGCTACTTCGCTATGAGGAGTCACTTCAGGAACAAGAATTGACGgtctgaaact ... ttcgttgcagGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aacttacttcatgttcatgggtacatcttataataggtgcttatgttcgttgcagGATATTGTTGTTGGAGCAGCTTGTGCTGACTTGAGACATCAACTTGATGTATCATATCCTGTTACCAATGGCATTGTTCAAAATTGGGATGACATGGGCC
 aacttac  putative branch site (score: 2)
                     tacatcttataata  TA-rich tract