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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG

Basic information

species Glycine max
transcript GLYMA18G49770.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g45420.3 (Oryza sativa), 3'ss of exon 4
--gtttgtaatgga--atacacggcaacaattattgttgaggat-atatatgtgtgtgtgtgtgtcttggtt-------acactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
   ||| |  || |  ||   |   |  | |  || || | |||   |||  ||  | | | | ||||           |  | |||||  |||    |||| || ||||| ||| | |||||||| |||||||| ||||| ||||| |||||||| ||| | ||||| ||||||||||| |||||||| |||||||| |
gtatttatcttgaatgatttgcattattactccttcttcatgattgcataattgcttctatctttctttacctttttcaattccttttccatttgactagGTGATATCTGGTAAACTATATGCTGGCCCTGAAGTTGATGTGTGGAGTTGTGGTGTTATTCTTTATGCTCTTCTTTGTGGTACCCTTCCATTTGATGACG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g17980.2 (Oryza sativa), 3'ss of exon 4
---------gtttgtaatggaatacacggcaacaat-tattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcattt--ttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
          ||| |  || |  ||   |  || || | || |||    | |  |||      | | | |  |  ||| | | ||    ||  ||  ||||| |||||||| ||||| |||||||||||||| || ||||| ||||||||||| || ||  | ||||| || |||||||| || ||||| ||||||||||
gtttttttttttttttttgtatcactgtgggactatatcttcttgctcctttgcatgca---atattttttcttattatagtattatggttcctttgcagGTGATCTCTGGTAAATTATATGCTGGACCTGAGGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGATG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os08g37800.1 (Oryza sativa), 3'ss of exon 4
--gtttgtaatggaatacacggcaacaat-tattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcattt--ttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
   ||| |  || |  ||   |  || || | || |||    | || |||      | | | |  |  ||| | | ||    |   ||  ||||| |||||||| ||||| ||||||||||| || || ||||| ||||||||||| || ||  | ||||| || |||||||| || ||||| |||||||| |
gtattttttttgtatcactgtgagactatatcttcttgctcctttacatgca---atattttttcttattatagtattatggtccctttgcagGTGATCTCTGGTAAATTATATGCTGGACCCGAGGTTGATGTATGGAGCTGTGGAGTGATCCTTTATGCTCTCCTTTGTGGTACTCTTCCATTTGATGACG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G107867_T04 (Zea mays), 3'ss of exon 3
-------gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgtgtgtgtcttggt-tacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
        ||  || ||   |          |  |||| ||       | |  |        ||| ||||| |  | | |   |  | |||  ||||| || ||||| ||| | |||||||||||||| || ||||| ||||| ||||| || ||| | ||||| ||||||||||| || ||||| ||||||||||
gtattttattcttattgctgtgagtttgctgatctatttttttttcctttttagaacac-catgtttcttgatacatagtgagtgttcttttgcagGTAATATCTGGTAAACTATATGCTGGACCTGAGGTCGATGTATGGAGTTGTGGGGTGATTCTTTATGCTCTTCTTTGTGGAACTCTTCCATTTGATGATG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G077278_T01 (Zea mays), 3'ss of exon 4
gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcat----ttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
|| |    | | |||     |||  |   |  || | | | |  || |   | | |   |     | |||| |||   |    |||||  |||| || ||||| ||| | |||||||| |||||||| || |||||||||||||| || ||| | ||||| |||||||||||||| || || ||||| ||||
gtatcatctagcataatttacaattagcgtccttcatggt-tgcatttacatatataacttgccatgacacgtttctgtcttattttcttagGTCATATCTGGTAAACTATATGCTGGTCCTGAAGTTGACGTCTGGAGCTGTGGAGTTATTCTTTATGCTCTTCTTTGTGGCACTCTCCCATTTGACGATG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G180704_T01 (Zea mays), 3'ss of exon 4
--------------gtttgtaatgga-atacacggcaacaatt--attgttgaggatatatatg-tgtgtgtgtgtgtcttggttacac-----tttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
               |  || |  || ||| |  | | | |||  ||   |  ||   ||| |  |     | |||     ||    ||       ||| |||||   ||||| || ||||| ||| | ||||||||||||||||| ||||| ||||||||||| || ||| | ||||| ||| | ||||| || || || |||||||| |
gtaagctttctataataggtcaaagatataaagaggacccattagatcagtatggccgtatttcctacccctttgttggcaggcagtacagtatccttttattttctgcagGTGATATCTGGTAAACTATATGCTGGACCTGAAGTTGATGTGTGGAGCTGTGGGGTTATTCTTTATGCTCTTTTATGTGGTACTCTGCCATTTGATGACG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 4
--------gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
         |  |   |    ||   |   |  | |||  ||  |  | | |       ||  |  ||  | ||     | | | | || |  ||||| || || || || || |||||||| |||||||| |||||||||||||||||||| ||  | || || ||||| ||||| || ||||| ||||||||||
gtaagtgcttcagccctcaggtatctgaggaatactataattaggcttgttt---caaatg-ataggttatagtcgagatctataaattgtttcagGTAATTTCGGGCAAGTTATATGCTGGCCCTGAAGTAGATGTCTGGAGCTGTGGTGTGATACTCTACGCTCTTCTCTGTGGGACGCTTCCATTTGATGATG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G29160.2 (Arabidopsis thaliana), 3'ss of exon 4
gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgt-gtgtgtcttg-----gttacactttttcattttt--cacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
|| | || |  | || |       |||| || || |   ||| |   | ||| | || | ||||      ||   |  | ||  || ||     ||||||| || || ||||| ||||||||||||||||| ||||| ||||| || || || || || || || ||  | || || || ||||||||||||||||
gtatatagtttagtaaagttactgaattgtttttcacc-tatgtgactatgtctcgtttctcttatgagtgtcttatctcttacttcttgttgtagGTTATATCAGGTAAATTATATGCTGGACCTGAAGTAGATGTATGGAGTTGCGGAGTTATATTGTACGCTCTATTATGCGGTACTCTTCCTTTTGATGATG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv14s0108g01230.t01 (Vitis vinifera), 3'ss of exon 4
---------------------------------------gtttgtaatggaatacacggcaacaattattgttgaggatat-atatgtgtgtgtgtgtgtctt--ggttacactt--tttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
                                        ||| |  | ||       |  ||||| | | |  |  |||| ||     ||  ||    |  |  ||||  | ||  | ||   ||| | ||||||| ||||| | |||||| || |||||||| |||||||| |||||||| ||||| ||||| || || ||||||||||| || ||||| ||||||||||
gtaaggagtttgcagcattataatataagacaattcctaatttttggttgagagatgagttacaat-actttctaatatatgatgataatggttgaaatttctaaggttctaattagtgtcccattttatagGTTATATCTGGAAGATTGTACGCAGGACCTGAGGTGGATGTATGGAGCTGCGGTGTTATTTTGTACGCTCTTCTTTGTGGTACTCTTCCATTTGATGATG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ17922 (Selaginella moellendorffii), 3'ss of exon 3
gtttgtaatggaatacacggcaacaattattgt-tgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
                          | | | | | ||||||  | |     |  |   ||| |  | |    | ||  |   |||||||| || || || ||  | ||||||||||| ||||| || || ||||||||||| || ||  |||| || ||||| ||||||| |||||| ||||| || |
-------------------------gtcagtatatcaggataagttttgtcataggctcgtcattctaagttgtctttctcaatcacagGTGATTTCCGGTAAGCTCTATGCTGGACCAGAAGTAGACGTATGGAGCTGTGGGGTGATACTATACGCACTTCTCTGTGGCAGCCTTCCCTTTGACGACG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ10631 (Selaginella moellendorffii), 3'ss of exon 4
gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
                                       ||    |     |   | | || |    | |   |||   |||   ||||| ||||| || ||  | ||||| ||||| ||||||||||| |||||||||||||| || || || || ||||| ||||| |   | |||||||| || |
--------------------------------------gtaagcttcgacattcttttttcctctagaaagccttttccttt---cagGTGATCTCGGGAAAGCTTTATGCAGGACCAGAAGTGGATGTATGGAGCTGTGGTGTCATATTGTACGCACTTCTGTGTGGAAGTTTACCTTTTGACGACG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ35371 (Selaginella moellendorffii), 3'ss of exon 3
gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
                                     |  |  |  |  | | | | |  ||     |  | ||||| |||    ||||| ||||| || ||  | ||||| ||||| ||||||||||| |||||||||||||| || || || || ||||| ||||| |   | |||||||| || |
-------------------------------------gtaagcttcgactttcttttttcctctagaaagccttttccttt----cagGTGATCTCGGGAAAGCTTTATGCAGGACCAGAAGTGGATGTATGGAGCTGTGGTGTCATATTGTACGCACTTCTGTGTGGAAGTTTACCTTTTGACGACG

upper sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 5
lower sequence: EFJ16445 (Selaginella moellendorffii), 3'ss of exon 3
gtttgtaatggaatacacggcaacaattattgttgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
                  | ||  |  |||   |     | |   | |  |   ||   |||  |||   |||| |||    |||||||| || || || ||  | ||||||||||| ||||| || || ||||||||||| || ||  |||| || ||||| ||||||| |||||| ||||| || |
------------------gtcagta--tatcagtataagttttgttataggctcgtcattctaagttgt-ctttctcaa---tcacagGTGATTTCCGGTAAGCTCTATGCTGGACCAGAAGTAGACGTATGGAGCTGTGGGGTGATACTATACGCACTTCTCTGTGGCAGCCTTCCCTTTGACGACG

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|23731437|gb|BU763843.1|BU763843
EST:     GTCACTTTCTTAAAACAAGTTGTGGAAGCCCTAACTATGCAGCTCCTGAG                         GTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGT
genomic: GTCACTTTCTTAAAACAAGTTGTGGAAGCCCTAACTATGCAGCTCCTGAGgtttgtaatg ... tttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGT
EST: gi|254315447|gb|GR825256.1|GR825256
EST:     GTCACTTTCTTAAAACAAGTTGTGGAAGCCCTAACTATGCAGCTCCTGAG                         GTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGT
genomic: GTCACTTTCTTAAAACAAGTTGTGGAAGCCCTAACTATGCAGCTCCTGAGgtttgtaatg ... tttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGT
EST: gi|254336679|gb|GR842858.1|GR842858
EST:     GTCACTTTCTTAAAACAAGTTGTGGAAGCCCTAACTATGCAGCTCCTGAG                         GTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGT
genomic: GTCACTTTCTTAAAACAAGTTGTGGAAGCCCTAACTATGCAGCTCCTGAGgtttgtaatg ... tttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaggatatatatgtgtgtgtgtgtgtcttggttacactttttcatttttcacagGTTATCTCTGGGAAATTGTATGCTGGACCTGAAGTGGATGTCTGGAGCTGTGGTGTAATTTTATATGCCCTTCTTTGTGGCACCCTTCCTTTTGATGATG
                                   cactttttcatttttc  CT-rich tract
                                    actttttcattttt  TA-rich tract