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'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgttattctttcataacttgttttctacgtgctggaactagttcttctgatttcttatctttctagtatgctatcttatggattctagctattcatttttctagaaaggacccaactaatgattcttgcaattgcctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGACCAAATGGCAAGTTGGATAGTGAACAATGAATTATATAGCGAGAATGTTG

Basic information

species Zea mays
transcript GRMZM2G134396_T02
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os07g49270.1 (Oryza sativa), 3'ss of exon 11
gtgtgttattctttcataacttgttttctacgtgctggaactagttcttctgatttcttatctttctagtatgctatcttatggattctagctattcatttttctagaaaggacccaactaatgattcttgcaattgcctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGACCAAATGGCAAGTTGGATAGTGAACAATGAATTATATAGCGAGAATGTTG
||   |  ||||||| | ||   | |  ||  ||       |  |||||     |  |  | ||     | ||  || | |   ||| |   ||   |||  |||         | || || |  | ||  || |   ||| | ||||||||||||||| | |||||||| |||||||| |||||||| || ||||| || |||||||| ||||||||||| |||||||| || |||||||||||||
gtacttctttctttctttaccaatctcatatttg-------tgattctttaaggtggtgttgttcgctatttgtcatgtaacacattgt--ttacatattgctctg-------tctaattattcctactctca-taatcttcaccagATGGCTGAGTATAGAATATCTATCTATGGGAGAAAGAAAAGTGAGTGGGATCAGATGGCAAGCTGGATAGTGAATAATGAATTGTACAGCGAGAATGTTG

upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 10
lower sequence: PP1S307_76V6.1 (Physcomitrella patens), 3'ss of exon 10
----------------------gtgtgttattctttcataacttgtttt----ctacgtgctggaa--ctagttcttctgatttcttatctttctagtatgctatctta--tggattctagctattcatttt---tctagaaaggacccaa---ctaatgattcttg-caattgcct-----ttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGACCAAATGGCAAGTTGGATAGTGAACAATGAATTATATAGCGAGAATGTTG
                         |   ||| ||| || |  ||||||    || | |  || ||  | | |||| |  | |||  | |        |     | ||   ||      |   ||   ||||   | |   | || |   |   | | ||| ||    |||  || |      | ||||||||| |||||| | || ||||| |||||||||||| |||| |||||||||||  | || |||||||| || |  ||  || |  | || ||||||||  
gtaaacatctacaacttcttttcaattaaatttttttattagatgtttttgtactccattttgaaataccacttctgcccaattcacaaccccaccacacaaggttttgagtgagcaacacacatgggttttgagtttttgaggggcatgaagtccattgaatcccatcaacagcatattcactttcagATGGCAGAGTATAGAATTTCTATCTATGGGAGGAAGGAAAGTGAATGGGACCAGTTAGCCAGTTGGATTGTCACTAACAAACTTCAAAGTGAGAATGTGA

upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 10
lower sequence: PP1S77_89V6.1 (Physcomitrella patens), 3'ss of exon 10
gtgtgttattctttcataacttgttttctacgtgctggaactagttcttctgatttcttatctttctagtatgctatcttatggattctagctattcatttttctagaaaggacccaactaatgattcttgcaattgcctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGACCAAATGGCAAGTTGGATAGTGAACAATGAATTATATAGCGAGAATGTTG
                                   || ||      || |||      ||| || ||||||  || | |  |  |  |||   | || ||   || | || ||  ||  | | |||  |||    | | ||    |||||||||||||| ||||||| ||||| || |||||||| || || ||||| ||| ||||   |||||| ||  ||||| |  |  | || ||||| ||  
-----------------------------------tgaaaa----cctcctg----tctatgttgctagtactctttatctttaaaactaa--aatccttccacttgcaaagaatca--tgacgatatttgtctgttcgttgtgtagATGGCTGAGTATAGGATATCAATTTACGGAAGGAAGAAGAGTGAGTGGGATCAACTGGCCGATTGGATTGTTCACAATAAGCTGCACAGTGAGAACGTCA

upper sequence: GRMZM2G134396_T03 (Zea mays), 3'ss of exon 10
lower sequence: PP1S168_82V6.1 (Physcomitrella patens), 3'ss of exon 10
gtgtgttattctttcataacttgttttctacgtgctggaactagttcttctgatttcttatctttctagtatgctatcttatggattctagctattcatttttctagaaaggacccaactaatgattcttgcaattgcctttatc--agATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGACCAAATGGCAAGTTGGATAGTGAACAATGAATTATATAGCGAGAATGTTG
                                | |  |||     |  |    ||   |  ||||  ||  |          | | |    |  |  ||   | || |||      ||| ||| |    |  | ||| || |     |||||||||||||  ||||||| ||||| || |||||||| ||||| ||||| ||  ||||||||||||||||  |||||    | || || || || ||  
-------------------------------atacgcgaatggcgttgttaacttggatgacttttaagcgta---------gaact---acggtgtatccgtttacaaa------aacaaataacctgtttatttgtctgtgatgtagATGGCTGAGTACAGGATATCAATTTACGGAAGGAAGAAGAGCGAGTGGGATCAGTTGGCAAGTTGGATAGTTGACAATCGGCTGTACAGTGAAAACGTCA

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|71772853|gb|DR970776.1|DR970776
EST:     CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAG                         ATGGCTGAGTATCGGATATC
genomic: CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAGgtgtgttatt ... cctttatcagATGGCTGAGTATCGGATATC
EST: gi|74237693|gb|DT645607.1|DT645607
EST:     GAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAG                         ATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC
genomic: GAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAGgtgtgttatt ... cctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC
EST: gi|71299098|gb|DR785546.1|DR785546
EST:     CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAG                         ATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC
genomic: CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAGgtgtgttatt ... cctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC
EST: gi|32835884|gb|CD975562.1|CD975562
EST:     CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAG                         ATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC
genomic: CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAGgtgtgttatt ... cctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC
EST: gi|32863100|gb|CF002782.1|CF002782
EST:     CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAG                         ATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC
genomic: CTGAGCTGACAAAAGAAGTATTTTCTGACCTTGAAGCAAGTAAATATCAGgtgtgttatt ... cctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattcatttttctagaaaggacccaactaatgattcttgcaattgcctttatcagATGGCTGAGTATCGGATATCTATTTATGGGAGGAAGAAAAGCGAATGGGACCAAATGGCAAGTTGGATAGTGAACAATGAATTATATAGCGAGAATGTTG
                        aactaat  putative branch site (score: 2)
                                          ttgccttt  putative PPT
     atttttcta  TA-rich tract