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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttttcatgggtggaccaactcagcttgtaacctgacatttcttcaccttgccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG

Basic information

species Zea mays
transcript GRMZM2G108829_T03
intron # 11
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: LOC_Os02g47220.3 (Oryza sativa), 3'ss of exon 5
gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttttcatgggtggaccaactcagcttgtaacctgacatttcttcaccttgccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
          ||||     |||||| | ||| || ||||| |   |   |     || || |||     | |   ||   | |      |||||| ||   |||||||||||| ||||||||||||||||| ||| |||||||||| |||||||| |||||||| || ||
---------gtaaagtttctactatctactttgtattttggcacatatagtacatactaagtca-----tgattggatgatcccct-ttttgccaacttgcagATATGTGGGCTATGGGTGCCATAATGGCCGAGCTGTTGACACTTCATCCTCTTTTTCCTGGCACAAG

upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA01G35190.2 (Glycine max), 3'ss of exon 7
------------------gtatgaaa--aataaaaggcttactatttgct------tagtgttttgtcttttcatgggtggaccaactcagcttgtaacctgacatttctt--caccttgccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
                  || ||  |  ||  || ||  |  | | || |      ||  | ||| |   || |||         | |    || || | |    ||| ||  ||  |  ||  ||  |||| ||||||||||||||||| |||||||||||| | ||  | || | |||||| || || ||  | ||
gtgagtgtctgactgggagtttgggactaactaatggtgtcatttatgttcttcactaacgctttctgcattgatgatgatgatgagtaccattctaccattttgtttattaacatttcccccccttctagACATGTGGGCAATGGGTGCTATAATGGCTGAGCTTTTCTCTCTTCGTCCTCTTTTCCCAGGTGCCAG

upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA09G34610.1 (Glycine max), 3'ss of exon 7
---------gtatgaaaaataaaaggcttact-atttgcttagtgttttgtcttttcatgggtg--gaccaac-tcagcttgtaacctgacatttcttcaccttgccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
           ||    | |||  |  | | | || | |||      |  | | | ||| | ||  ||  |    ||   ||  |  ||    ||     ||   ||  ||  |||||||||||||||||||||| |||||||||||| | ||  | || | |||||| || || ||  | ||
gtgagtatctgattgggactaatggtgtcatttatgttcttcactaatgctttctgcattgatgatgatgagtaccatgctgccatttgtttattaactcccccccccccttctagATATGTGGGCAATGGGTGCTATAATGGCTGAGCTTTTCTCTCTTCGTCCTCTTTTCCCAGGTGCCAG

upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA16G08080.1 (Glycine max), 3'ss of exon 7
---------------------------------------------gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttttcatgggtggaccaactcagcttgtaacctgacatttcttcaccttgccatctcat----agATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
                                              |   ||||      ||  ||   | |    | ||  || |||| |  ||  || |  ||       |||    |   ||   || | | |    | ||||    ||||||||||||||||||||| ||||||||||||||||| || |||| |||||| || || ||  | ||
gtaagcatctgatattgaataattgccatttatggtgacttatgttttccaaaagattgtggtctagagtctagacaatgcatt-tcttgtagtga-tgaattaatgacaagtgttgagtactataagtttaacattttttttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTCCGTCCTCTATTCCCCGGTTCCAG

upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: GLYMA16G17580.1 (Glycine max), 3'ss of exon 7
---------------------------------------------gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttt--tcatgggtggaccaactcagcttgtaacctgacatttcttcaccttgccatctc-atagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
                                              |   ||||    | ||  ||   | |    | ||  ||   | |  | |||  | ||  |     | |    ||   |||||| |     |||     ||   ||||||||||||||||||||| ||||||||||||||||| || || | |||||| || |||||  | ||
gtgagcatctgatgttgaataattttcatttatggtgacttatgttttccaaaagattatggtctagagtctagacaatgcattccttgtagtgatgaattgatgacaagtgttgaatactgtacatttatcttttttgtttcatctgcagATATGTGGGCAATGGGTGCTATAATGGCTGAGTTGTTCACTCTGCGTCCTCTATTCCCTGGTTCCAG

upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: AT5G45430.1 (Arabidopsis thaliana), 3'ss of exon 9
gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttttcatgggtggaccaactcagcttgtaacctgacatttcttcaccttg-ccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
              || ||| | | |     | |        |||   |   |     |    ||   |   | | ||| |  || |  ||     | |   |||||||||||| |||||||| || ||||| ||| ||||| | || |  ||||||||||||||| ||||
-----------gttagtcttcccaatataccaataacagaagtttctttt--taagatagtctagtgcggtgcttaacaatggttaattttaattgtgtttcagATATGTGGGCGATGGGTGCTATTATGGCGGAGCTGTTGTCTCTTCGCCCTCTCTTTCCTGGAGCTAG

upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv09s0070g00320.t01 (Vitis vinifera), 3'ss of exon 2
---------------------------------------gtatgaaaaataaaaggcttactatttgcttagtgttttgtcttttcatgggtggaccaa-ctcagcttgtaacctgacatttcttcacctt--gccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
                                       |   | || || ||      || |       |    | ||||| | || |   | | | | |||     ||     | || |  | ||| |   |   |    | |||||||||||||||||| | || |||||||| ||||| || |||| |||||||||||| ||      
gttacaaaagatgtaataaaaattgctgattttggtcttgctcggaagatcaattctcaaccaccatacaaagaatatgtctctacacgctggtatcgagctccagAGGTTCTGCGTCAATCATCCACATATGGTTCTGCAGTCGATATGTGGGCAATGGGTACTATCATGGCTGAATTGTTTACTCTCCTTCCTCTCTTTCCAGG------

upper sequence: GRMZM2G108829_T01 (Zea mays), 3'ss of exon 10
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 3'ss of exon 7
gtatgaaaaataaaaggcttactatttgcttagtgttt-tgtcttttcatgggtggaccaa--ctcagcttgtaacc--tgacatttcttcaccttgccatctcat-agATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
        | || |  | |    |    || |   ||| ||   ||| |        |||    |  |  ||||  |  ||| ||||  |  || |    || |   ||||||||||||||||||||| || |||||||| ||||| || |||| |||||||||||| ||| | ||
-----gtcagtatatagttggaaagagactgaaattttatgaagtttgaaaaaatatccatatttttgtctgtagacactgaaattttatttccattttttccctccagATATGTGGGCAATGGGTGCTATCATGGCTGAATTGTTTACTCTCCGTCCTCTCTTTCCAGGATCGAG

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|60349468|gb|DN216441.1|DN216441
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|211496286|gb|FL041698.1|FL041698
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATATGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|32871065|gb|CF010747.1|CF010747
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|32932540|gb|CF037352.1|CF037352
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|71304777|gb|DR788504.1|DR788504
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|31350422|gb|CD434779.1|CD434779
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|32869779|gb|CF009461.1|CF009461
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|47961778|gb|CN844487.1|CN844487
EST:     CGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTTG                         ATATGTGGGCAATGGGGGCCATAATGGCTGA
genomic: CGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTT-Ggtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGA
EST: gi|67011156|gb|CO439905.1|CO439905
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|211496285|gb|FL041697.1|FL041697
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
EST: gi|5932684|gb|AW057045.1|AW057045
EST:     TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTG                         ATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC
genomic: TCGGGCACCAGAAGTATTGCTCCAGTCATCTGCTTATGATTCTGCAGTTGgtatgaaaaa ... catctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgggtggaccaactcagcttgtaacctgacatttcttcaccttgccatctcatagATATGTGGGCAATGGGTGCCATAATGGCTGAGTTGTTGACACTCCATCCTCTCTTTCCTGGAACTAG
                               tttcttcaccttgcc  CT-rich tract
                              atttctt  TA-rich tract