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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgttttttttctaaaaagcaagagtgctaatctattatgttcaaacaacttaccttatatgacttctgttgtctaatatgcaacttgaattaatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCTACAATGTATGCATCTTTGCTTACGGACAGACGGGAACAGGAAAGACTTT

Basic information

species Zea mays
transcript GRMZM2G092232_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os03g02290.2 (Oryza sativa), 3'ss of exon 1
--------------------------------------------------------tgttttttt---tctaaaaagcaagagtgctaa-tctattatgttca---aacaacttaccttata-tgacttctgttgtctaatatgcaa-cttgaattaatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCTACAATGTATGCATCTTTGCTTACGGACAGACGGGAACAGGAAAGACTTT
                                                        |||||||||     | |||    | | || ||  ||||| |||| ||   |  || | |    ||  ||  || |    |||||| || ||  ||  | |||||  ||| |  ||||||||||||||| |||||||| || || || ||||| |||||||||||||| ||||| ||||| |||||||| || |||||||| ||||||||
gtatttctaactatgctggagtttctattgggcctctttgtcctttacagttcttgtgtttttttagacatgaaagatcaaaatggtagctctataatgtgcagctagtaattaaagcaatggtgcattataacatctaatctgtaaatttccaataatgtgcagCTGATGTGTATGCCGATGCATCTCCACTGGTTACTTCGGTCTTGGATGGCTACAATGTGTGCATATTTGCGTACGGACAAACAGGAACAGGGAAGACTTT

upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA09G33340.1 (Glycine max), 3'ss of exon 7
-tgttttttttctaaaaagcaagag-----tgct--aatctattatgt--tcaaacaacttaccttatatgacttctg-ttgtctaatatgcaac---ttgaattaatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCTACAATGTATGCATCTTTGCTTACGGACAGACGGGAACAGGAAAGACTTT
 | | |      |  ||  ||| |      ||||  |  ||   ||||  ||   |   |||  | | || | | |   || |||||    ||     ||  ||   | ||||| |  ||| | ||| ||||| ||  || | || |  |||||  | |||||||||||||| |||||||||||||| ||||| || |||||||| ||||| ||
gtatctgaaaagtgtaacacaataactgtttgcttgagccttgaatgtcatcgctcttattatttaacataattgcaacttttctaaacaacagtgctttctatgttttaacagTTGATGTTTTTGCTGATGCATCATCAATGGTAATCTCTGTACTGGATGGCTACAATGTTTGCATCTTTGCTTATGGACAAACAGGAACAGGGAAGACATT

upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA01G02620.1 (Glycine max), 3'ss of exon 10
--------------------------tgttttttt---tctaaaaagcaagagtgctaatctattatgttcaaacaacttaccttatatgacttctg----ttgtctaatatgcaac---ttgaattaatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCTACAATGTATGCATCTTTGCTTACGGACAGACGGGAACAGGAAAGACTTT
                          | |||  ||    ||  || |  |  |  || || ||||  || |||     |||   | ||| |    ||    || |||||    ||     ||  ||   | ||||| |  ||| | ||| ||||| ||  || | || |  |||||  | |||||||||||||| |||||||||||||| || || || |||||||| ||||| ||
gtatctgaaaagtgtaacacaatagctatttgcttgagccttgaatgtcatcgctcttatatatttagtacaagatttttattatttatcataattggaacttttctaaacaacagtgttttctatgttttaacagTTGATGTTTTTGCTGATGCATCATCAATGGTAATCTCTGTACTGGATGGCTACAATGTTTGCATCTTTGCTTATGGGCAAACAGGAACAGGGAAGACATT

upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT2G22610.2 (Arabidopsis thaliana), 3'ss of exon 9
tgttttttttctaaaaagcaagagtgctaatctattat--gttcaaacaacttaccttatatgacttctgttgtctaatatgcaacttgaattaatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCTACAATGTATGCATCTTTGCTTACGGACAGACGGGAACAGGAAAGACTTT
                    || ||||||    ||  |    | | |  | | |  ||| || ||        |  |  | |   ||    ||  ||  ||| |  ||| |  |||||||| |||||  | ||    || ||| |||| ||||||||||| || || ||||| |||||||| || |||||||||||||| ||
------------------gtagcgtgctatgtcatggtcaagttagatcattaagtttaaataacagtaacaattaacaaagtttctatctttgttgtgcagTTGATGTCTTCGCCGATGCTTCTCCGATGGTTGTTTCAGTCCTAGACGGCTACAATGTTTGTATTTTTGCCTACGGACAAACAGGAACAGGAAAGACGTT

upper sequence: GRMZM2G092232_T01 (Zea mays), 3'ss of exon 7
lower sequence: PP1S9_137V6.1 (Physcomitrella patens), 3'ss of exon 10
------------------------tgttttttttctaaaaagcaagagtgcta--atctattatgttcaaacaacttaccttatatgacttctgttgtctaatatgcaacttgaattaatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCTACAATGTATGCATCTTTGCTTACGGACAGACGGGAACAGGAAAGACTTT
                        ||| || || |    ||| ||  || ||    ||| | ||       | |  | |  ||| |  ||  |   | | |      ||| || ||   |  ||||    ||| |  || ||  |  | ||  | ||    || ||  | || ||||| || |||||||||||||||||||||||||| || || |||||||| ||
gtaaccttaagatttctctcatggtgtcttgttgc-gtcaaggaattgttctgctgtctttgataaggtgccgatgttcaatatcttgctcttcgcgaccacacactaacatgcatcccttcacagCCGATGTATTCGCAGACACAGCCCCGGTGGTGGTGTCGGTTCTTGACGGCTATAACGTATGCATCTTTGCTTACGGACAGACTGGTACTGGAAAGACATT

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|78078507|gb|DV506920.1|DV506920
EST:     TAAAAAGACCTTTAAGTTTGATAGAGTCTTCACGCCAAAGGATGATCAAG                         ATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCT
genomic: TAAAAAGACCTTTAAGTTTGATAGAGTCTTCACGCCAAAGGATGATCAAGgtatattagt ... taatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caacttaccttatatgacttctgttgtctaatatgcaacttgaattaatgaacagATATTGTGTATGCCGATGCGTCTCCACTAGTCACATCTGTCTTAGATGGCTACAATGTATGCATCTTTGCTTACGGACAGACGGGAACAGGAAAGACTTT
                                       ttgaattaat  TA-rich tract