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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctattttttgtggagcattaagaaatgatctattaacctctataactttgccactgaag

Basic information

species Glycine max
transcript GLYMA07G31840.2
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G31840.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os07g42950.1 (Oryza sativa), 5'ss of exon 3
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttag-ctggaaatcttattatatctgtgtctgttcctattttttgtggagcattaagaaatgatctattaacctctataactttgccactgaag
 || |||||||  |||||||||||||| ||||||||   ||| ||||||||||| ||||||   |||| || |     || ||     ||   |||   | |||| | ||         |||| | ||  ||| |     |    |               
GCGTGCATTTTTTGACAAGAGGATCTCTCAGGAGGTCAGTGGCGATGCTCTGGGCGAGgtaatatcgtgaggcctctgatgtttcctaattactgt---tacctagtctt---aagatgttaacatatc-tctctcctttttctcag--------------

upper sequence: GLYMA07G31840.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G851698_T02 (Zea mays), 5'ss of exon 3
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctattttttgtggagcatta-agaaatgatctattaacctctataactttgccactgaag
 || || ||||  |||   |||||||||||||||||   ||||||||||||||||||||||   |   |   |    || |  | ||   ||   |   |      |||  |     |||| ||   |||| | ||    | |   |              
ACGTGCCTTTTATGACCGAAGGATCTCCCAGGAGGTCAGTGGTGATGCTCTGGGTGAGgtaaattttctgctttcttatttcttgatccatgccccctattgctgatttcatacttaattataggtgtgatgtgtttcttttttgcag-------------

upper sequence: GLYMA07G31840.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G054136_T01 (Zea mays), 5'ss of exon 3
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctatttt--ttgtggagcattaagaaatgatctattaacctctataactttgccactgaag
 || || ||||  |||   ||||| |||||||||||   ||||||||||||||||||||||  ||  || |   ||  | ||  |  |||  || || || ||  |||  |  |  |  ||  ||   |||| | ||   || | |   |||||        
GCGTGCCTTTTATGACCGAAGGATATCCCAGGAGGTCAGTGGTGATGCTCTGGGTGAGgtaaact--ttggggtgacttatttcttgatccatgactcttgctgatttcatacttaaaaatataggtgtgatatgtt--tctttgt---tttgcag------

upper sequence: GLYMA07G31840.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G054136_T05 (Zea mays), 5'ss of exon 3
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctattttttgtggagcattaagaaatgatctattaacctctataactttgccactgaag--
 || || ||||  |||   ||||| |||||||||||   ||||||||||||||||||||||  ||  || |   ||  | ||  |  |||  || || || ||  |||         ||  ||   |||| | ||   || | |      |    | |||  
GCGTGCCTTTTATGACCGAAGGATATCCCAGGAGGTCAGTGGTGATGCTCTGGGTGAGgtaaact--ttgggatgacttatttcttgatccatgactcttgctgatttcatacttaaatataggtgtgatatgtt--tctttgttttgcaggagttcaaggg

upper sequence: GLYMA07G31840.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G054136_T09 (Zea mays), 5'ss of exon 3
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctattttttgtggagcattaagaaatgatctattaacctctataactttgccactgaag
 || || ||||  |||   ||||| |||||||||||   ||||||||||||||||||||||  ||  || |   ||  | ||  |  |||  || || || ||  |||      |   ||||  |  | | |  ||   |   |   |||||        
GCGTGCCTTTTATGACCGAAGGATATCCCAGGAGGTCAGTGGTGATGCTCTGGGTGAGgtaaact--ttgggatgacttatttcttgatccatgactcttgctgatttc-----atacttaaatataggtgtgatatgtttctttgttttgcag------

upper sequence: GLYMA07G31840.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv07s0191g00060.t01 (Vitis vinifera), 5'ss of exon 3
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctattttttgtggagcattaagaaatgatctattaacctctataactttgccactgaag
 ||||||||||  |||||||||||||| ||||||||   ||| ||||| |||||||||||||| |  || | |   | |||| |||     |  |   || |  ||| ||  | |  ||| |   |||     | | | | | | ||             
GCGAGCATTTTTTGACAAGAGGATCTCACAGGAGGTCAGTGGAGATGCACTGGGTGAGgtatgat--tttgttactattcttctta-----ggataacttgccctttgttaggaatgatttattgatgtatcttaagcgtgtttgacag-----------

upper sequence: GLYMA07G31840.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0017g01350.t01 (Vitis vinifera), 5'ss of exon 3
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctattttttg-tggagcattaagaaatgatctattaacctctataactttgccactgaag
 ||||||||||  |||||||||||||| ||||||||   ||| ||||| ||||| |||||||||   ||  |||    |||| |   |  | | | |  || |||| |||| |  |  | | | | |  |  | | | |  ||  |               
CCGAGCATTTTATGACAAGAGGATCTCACAGGAGGTCAATGGGGATGCACTGGGCGAGgtatgcctttt--ctgc---tcttctcccacttatttat-ctcatattgtttgatctactaatcatacaaaacatgtcatctgcttcacag------------

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|193711766|gb|FK647865.1|FK647865
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298167911|gb|HO013174.1|HO013174
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298189754|gb|HO038157.1|HO038157
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298164705|gb|HO014350.1|HO014350
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTGAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|208041564|gb|GD843014.1|GD843014
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298166233|gb|HO009204.1|HO009204
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|208190348|gb|GD994524.1|GD994524
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|19346568|gb|BM891448.1|BM891448
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|193394245|gb|FK360308.1|FK360308
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|213601378|gb|DB956684.1|DB956684
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298164434|gb|HO014079.1|HO014079
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298188012|gb|HO031969.1|HO031969
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|7684901|gb|AW755549.1|AW755549
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|193447979|gb|FK414118.1|FK414118
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGG
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGG
EST: gi|16347870|gb|BI973465.1|BI973465
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|8825892|gb|BE209622.1|BE209622
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298187978|gb|HO031935.1|HO031935
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|9259173|gb|BE347320.1|BE347320
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|208156915|gb|GD956343.1|GD956343
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298190488|gb|HO032609.1|HO032609
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298171661|gb|HO021253.1|HO021253
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|10847435|gb|BF070122.1|BF070122
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTTCAAAATCACCGGTGGGTGTGACAAACAAGG
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATG-TTTTCAAAATCACCGGTGGGTGTGACAAACAAGG
EST: gi|298170108|gb|HO018732.1|HO018732
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298170056|gb|HO018680.1|HO018680
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|298168528|gb|HO009458.1|HO009458
EST:     TTTGGGACAGGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|193324144|gb|FK292592.1|FK292592
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAAGTTTAAAGGATATGTTT
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGA-GTTTAAAGGATATGTTT
EST: gi|298168505|gb|HO009435.1|HO009435
EST:     TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTAATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
EST: gi|193703199|gb|FK639673.1|FK639673
EST:     TTTGGGACAAGTGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAG                         GAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA
genomic: TTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgt ... gccactgaagGAGTTTAAAGGATATGTTTTCAAAATCACCGGTGGGTGTGACAAACAAGGA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCGAGCATTTTGGGACAAGAGGATCTCCCAGGAGGTTCTTGGTGATGCTCTGGGTGAGgtatgctcgttagctggaaatcttattatatctgtgtctgttcctattttttgtggagcattaagaaatgatctattaacctctataactttgccactgaag

- - - - - - - - AAGAGG
- - - - - - - -  AGAGGA
- - - - - - - - - GAGGAT