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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtacttaaacccacttcatctatcatctctaggttgtacaacatgaggaattagcattgcttgcatgtacaacacagtagtttttccccttgtgacagagaactagacattcttctaacagactatagataatatcagtgataattctgaatactttcctttactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG

Basic information

species Zea mays
transcript GRMZM2G069631_T02
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 5
gtagtacttaaacccacttcatctatcatctc---------taggttgtacaacatgaggaattagcat--tgcttgcatgtacaacacagtagtttttccccttgtgacagagaactagacattcttct---aacagactatagataatatca-gtgataattctgaatactttcctttactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG
|| |||||||| ||||||| ||  || |||||            ||||| |   |  || |   |   |  || |  |||||| || |       ||||  | |    ||  | |  ||||  |||||||     || |||  | |||  || |    |||    |   || |||| |||||||| ||||||||| || |||||||| || |  | |||  | ||| || | ||||||||| | ||||| ||||| |||||||||||||||||||||||||||||
gttgtacttaa-cccactttattcattatctcatctgtaatcgtgttgttctgtac-agcaccaaatctggtgttcacatgtaaaataagtctccttttggcatgaatacttatagatagattttcttcttatggcaaactgcacatatgattacaatatatgagtatttattttcatttactatgtatgcagGTCACTGGCCAAGATTTGAACCTTGTACCAAGATGCCGGCGTGTATATTCACATGCTCATGATTACCATATTAATTCCATTTCAAATAATAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G20830.1 (Glycine max), 3'ss of exon 5
gtagtacttaaacccacttcatctatcatctctaggttgtacaacatgaggaattagcattgcttgcatgtacaacacagtagtttttccccttgtgacagagaactagacattcttctaacagactatagataatatcagtgataattctgaatactttcctttactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG
                                                               ||   | |  |    ||    |||||      |||||           | |  | | | |   | ||| |      || ||   |||| || || ||  ||    |  |||| |||| ||  |||| ||    | |    | ||  || || |  | |||||||||||||| ||||| || ||||||||||| ||||||||||| ||
-------------------------------------------------------------attttagtatgtagtggagctagttttcaagccttgaca--------attacttgtttgaaactttgtagtt-----tagcga--gttct-aacacgttgatt-gtaaaatatgtagGTAACCAGCCATGAGACCAGTTTGATGGCTCGATGCCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA07G01440.1 (Glycine max), 3'ss of exon 5
gtagtacttaaacccacttcatctatcatctctaggttgtacaacatgaggaattagcattgcttgcatgtacaacacagtagtttttccccttgtgacagagaactagacattcttctaacagactatagataatatcagtgataattctgaatactttcctttactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG
                                                               ||   | |  |    ||    |||||      |||||           | |  | | | |   | ||| | |  | |||| |||  |         |   ||   |  |||| |||| ||  |||| ||    | |   || ||  || |  |  | |||||||||||||| ||||| || ||||||||||| ||||||||||| ||
-------------------------------------------------------------atttttgtatgtagtggagctagttttcaagccttgacaa--------ttacttgtttgaaactttgtagttta-gtgagtgctaacaca--------ttgattgtaaaatatgtagGTAACCAGCCATGAGACCAGTTTGGTGGCTCGATGTCGTAGAGTATATGCCCATGCTCATGATTATCATATTAATTCTATTTCAAATAACAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv11s0016g02550.t01 (Vitis vinifera), 3'ss of exon 5
gtagtacttaaacccacttcatctatcatctctaggttgtacaacatgaggaattagcattgcttgcatgtacaacacagtagtttttccccttgtgacagagaactagacattcttctaacagactatagataatatcagtgataattctgaatactttcctt-tactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG
                                                                   |  |   |||  | ||| |     ||| |   |    |||  |||  ||        | || |  | |  |   |   |   ||  | | | |  || || ||| || | |     ||    || ||     |||    || ||| |  || |  ||||||| ||||| |||||||| ||||| |||||||||||||| || ||
------------------------------------------------------------------aaattggtacatgg-agtctacattcttttataatcatactgaacaagct--------attacaatttaatttgtttgcaccacttgacattgtttttgtaatatctagGTACACAGCAATGAAACAAGCCTATCA----GCTAGATGTCGAAGAATATATGCTCATGCTCATGACTATCATATCAATTCCATTTCAAACAACAG

upper sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 5
gtagtacttaaacccacttcatctatcatctctaggttgtacaacatgaggaattagcattgcttgcatgtacaacacagtagtttttccccttgtgacagagaactagacattcttctaacagactatagataat-atcagtgataattctgaatactttcctttactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG
                                                                       |  |||  | | | |       |||        | |  |||   |  |    || | |  || || |   | | |||  || | | | ||| |  | |||||    |||| |   | || ||    |     || || ||  |  |  |  | ||||| |||||||||||||| ||||| ||||||||||||||||| ||
----------------------------------------------------------------------catgacattg-aatatgcatgtatgtagtgaccgattgaacaaattggt--ttgattttgtatgattagttgcgctaacacttagttcattcat--aatattt----agGTGATGAGTCATGAGACAAGCTCAGTGGCCAGGTGTCGGAGAATTTATGCTCATGCCCATGACTATCATATCAATTCCATTTCAAATAACAG

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|211079477|gb|FL398611.1|FL398611
EST:     ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTG                         GTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
genomic: ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTGgtagtactta ... atttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
EST: gi|211374954|gb|FL429396.1|FL429396
EST:     ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTG                         GTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
genomic: ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTGgtagtactta ... atttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
EST: gi|67012325|gb|CO441074.1|CO441074
EST:     ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTG                         GTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
genomic: ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTGgtagtactta ... atttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
EST: gi|71772341|gb|DR970277.1|DR970277
EST:     ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTG                         GTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
genomic: ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTGgtagtactta ... atttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
EST: gi|60340196|gb|DN207169.1|DN207169
EST:     ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTG                         GTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC
genomic: ATATGTCATTTCCTCCAGGAGGATGCACATCGCTGCGTTTGCCTGTGGTGgtagtactta ... atttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gactatagataatatcagtgataattctgaatactttcctttactatttatgcagGTTACAGGCCAAGAATTTACTCATGTTGCGAGAAGCAGACGTGTATATGCCCATGCCCATGACTACCATATTAATTCCATTTCAAATAATAG
                                 ctttcctttactattt  CT-rich tract
                                       tttactatttat  TA-rich tract