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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgattttttattcttcatagttaactgatggaatttcttttagcactaggattttcatgttgttggctcattttctttcttcatggattgatggtgctaaatgctaattgattccttactgtcttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACCC

Basic information

species Glycine max
transcript GLYMA16G33240.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G33240.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 3'ss of exon 5
gtttgattttttattcttcatagttaactgatggaatttcttttagcactaggattttcatgttgttggctcattttctttcttcatggattgatggtgctaaatgctaattgattccttactgtcttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACCC
                                          || | || |  |  | |||    |||  | |  |  |    ||      |||| |    || |  |   | |     | || |||| | |  ||||||| || ||||| ||||| ||||| ||||||||||||||||| || || || || || || |  |||||  | || |||||||| || |||||  |||
-----------------------------------------gtttgtac-ataaaatccatccgtttgaataaaatgttgctgtctccttgtgatagcttgaatttttttcttagaagctgct-tcttgttttcagGGTGTGCTGGGTATTAAGGTCAAGATTATGCTTGATTGGGATCCGAAGGGCAAGCAAGGACCAATGACTCCTTTACCGGATCTTGTTACCATCCATGCCC

upper sequence: GLYMA16G33240.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G093902_T02 (Zea mays), 3'ss of exon 5
gtttgattttttattcttcatagttaactgatggaatttcttttagcactaggattttcatgttgttggctcattttctttcttcatggattgatggtgctaaatgctaattgattccttactgtcttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACCC
                                         ||| |  || ||  |   ||||| |          |  || | ||   ||  |      ||  || || |      ||   || |||   |  ||||||| |||||||||||||||||||| ||||| || |||||||| || || || || || || |  |  ||  | |||||| | || || || |||   |
----------------------------------------gtttggtgcttggtatcagatgttatc---------ttattatgcaaacatataacaaaatagctgttagtaatactctagttgacttggcttcagGGTGTGCTTGGTATCAAGGTTAAGATTATGCTGGACTGGGATCCAAAGGGCAAGCAAGGGCCAACCATGCCTTTACCTGATTTGGTTACAATTCACGTGC

upper sequence: GLYMA16G33240.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G35530.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgattttttattcttcatagttaactgatggaatttcttttagcactaggattttcatgttgttggctcattttctttcttcatggattgatggtgctaaatgctaattgattccttactgtcttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACCC
                                |  | |||||    || | | |   |    || |||  |||  ||||  ||           ||        ||  |  ||| ||       ||  || |  ||||||| |||||| ||||||| |||||||||||||| ||||| || || || ||||| || || |  || ||  | |||||| |||| |  ||||| || |
--------------------------------gtcagttcttc--acagtggaaacctgt--ttcttgaatcacattctacct---------agtgagatcttgtgtaacctgaatctggttaatcacatgtgcagGGTGTGCTTGGTCTCAAGGTGAAGATCATGCTTGACTGGGACCCCAAGGGCAAACAAGGACCGATGACACCATTGCCTGATGTTGTGATCATCCATACAC

upper sequence: GLYMA16G33240.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 3'ss of exon 5
gtttgattttttattcttcatagttaactgatggaatttctt-ttagca--ctaggattttcatgttgttggctcattttctt-tcttcatggattgatggtgctaaatgc-taattgattccttactgtcttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACCC
||||| ||   |   |    |  |    | |||    || || ||| ||  ||      ||   || |||    |  || |||  |||||| |       || || |     |  | |||| ||| |  ||    | | ||||||| |||||||||||||| ||||||||||||||||||||||| || || || || || || ||||| || || |||||||||||||| |||||||| |
gtttgcttcactcacccagttgatctgttcatgcttctttttgttaacatcctcaaccattgcggtggttcatacggttgcttaccttcattgcaattgtgtcctgatcatgttctggattgcttgccatc----aaacagGGTGTACTTGGTATCAAGGTCAAGATCATGCTTGATTGGGATCCCAAGGGAAAGCAAGGCCCCAAAACGCCTCTCCCTGATCTTGTCACCATCCACACTC

upper sequence: GLYMA16G33240.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S29_222V6.1 (Physcomitrella patens), 3'ss of exon 5
-----------------------------gtttgattttttattcttcatagttaact---gatggaatttcttttagcactaggattttcatgttgttggctcattttctttcttcatggattgatggtgctaaatgctaattgattccttactgtcttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACCC
                             |||| | |  |  || | || | ||||     ||| |  |   |  | ||| ||   |    |  |   |   | |  ||   |  |   |  |||    | || |     ||||||  |  | |  ||||      |||| ||  | ||||||||||| ||||||||||| || |||||||| ||||| ||||| || || |  ||||| || || ||| | || || |||||||  |
gtattaacagatttttttgatacccctatgttt-actcctccttgtgcagaattaatcttcgattgtttccatccttgcattatactaaatagttctataattgaggtttcattattccg--ttggctctactgagcctgaattgaagctattccttctt----gcagGGAGTGTTGGGTATCAAGGTCAAGATCATGCTCGACTGGGATCCCAAAGGCAAACAAGGACCCATGACTCCACTCCCAGATGTGGTTACCATCCACATGC

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|12496522|gb|BG047106.1|BG047106
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAACACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|254323366|gb|GR835867.1|GR835867
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|254323365|gb|GR835866.1|GR835866
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|24135528|gb|BU926038.1|BU926038
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGGTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|7590371|gb|AW706125.1|AW706125
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|208067585|gb|GD865673.1|GD865673
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|193392562|gb|FK358721.1|FK358721
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATG
EST: gi|21995034|gb|BQ786562.1|BQ786562
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|31460672|gb|CD402700.1|CD402700
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTACCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|31459201|gb|CD401229.1|CD401229
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTACCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|5760086|gb|AI965449.1|AI965449
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|208182161|gb|GD980608.1|GD980608
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|8401719|gb|BE057353.1|BE057353
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|31460147|gb|CD402535.1|CD402535
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|254322051|gb|GR837465.1|GR837465
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|207720877|gb|GD701318.1|GD701318
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|193329772|gb|FK295722.1|FK295722
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|209709433|gb|BW668361.1|BW668361
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|7590822|gb|AW706566.1|AW706566
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|208080397|gb|GD878951.1|GD878951
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
EST: gi|4313934|gb|AI461053.1|AI461053
EST:     AGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACCAG                         G-TGTTCTTGGTATCAGGGTTAAGATCATGCT
genomic: AGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGAC-AGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCT
EST: gi|254322052|gb|GR837466.1|GR837466
EST:     CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAG                         GGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG
genomic: CAGTCAAGGATTACATTGACTCTGCAGTGAGACATGTGCTACTAAGACAGgtttgatttt ... ttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcatggattgatggtgctaaatgctaattgattccttactgtcttatatatagGGTGTTCTTGGTATCAAGGTTAAGATCATGCTTGATTGGGATCCTAAAGGGAAACAGGGTCCTAAAACTCCCCTTCCTGATCTTGTCACGATCCACACCC
                                  tccttac  putative branch site (score: 2)
                                 ttccttactgtctt  CT-rich tract
                                           tcttatatata  TA-rich tract