Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtatactttttgttatttgatagcaacttcctgacttccttataattacacatgcaattgctattccttttttgaagttccatgtgctatttttgtaatgatatgttcgtttggtaattgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC

Basic information

species Glycine max
transcript GLYMA19G17920.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G17920.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0040g00410.t01 (Vitis vinifera), 3'ss of exon 6
gtgagt--atactttttgttatttg-------atagcaacttcctgacttcc-ttataa----ttacacatgcaattgctattcctt---ttttgaagttccatgtgct--------------atttttgtaatgatatgttcgtttggtaatt---gttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
||||||  ||| ||    | | |||        | |  |     ||  |||  |||| |    |||| |||| |  | ||| || ||   | || |   |  ||||| |              |||||| | ||  | || |  |||  |  ||   ||||||||| || || |||||||||||||| || ||||| ||||||||||||||
gtgagttgatatttggcataagttgtagagctgtggttatcaaatgtattctgttatgagcttttactcatgtatctactactctttcagtcttcagaatttatgtggtggtgttatttgggaatttttttcattttgtgcttcttttttttttttggttctagAGGTACTTTGGTGCTGCAATTGGAAAAGGCAGACAGGCTGCTAAAAC
















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|31472889|gb|CD414917.1|CD414917
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|151409523|gb|EV279331.1|EV279331
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|151406675|gb|EV276490.1|EV276490
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|151405011|gb|EV274825.1|EV274825
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|192334683|gb|FK025888.1|FK025888
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTTTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|15203950|gb|BI426727.1|BI426727
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|151411404|gb|EV281215.1|EV281215
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|192334682|gb|FK025887.1|FK025887
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|151409103|gb|EV278911.1|EV278911
EST:     ACAGGGATGAACCACGGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|192324735|gb|FK018771.1|FK018771
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|192325082|gb|FK017498.1|FK017498
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|192325978|gb|FK016655.1|FK016655
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|16344394|gb|BI969989.1|BI969989
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|7685409|gb|AW756057.1|AW756057
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|16344458|gb|BI970053.1|BI970053
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|254321256|gb|GR827705.1|GR827705
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|193624088|gb|FK573912.1|FK573912
EST:     GAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: GAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|16347339|gb|BI972934.1|BI972934
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAG
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAG
EST: gi|254321257|gb|GR827706.1|GR827706
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|26047788|gb|CA784463.1|CA784463
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
EST: gi|6726863|gb|AW311282.1|AW311282
EST:     ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTAT                         AGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCATGCTGCTAAAACAGAG
genomic: ACAGGGATGAACCACAGTTGTACATGGTCGAACCTTCTGGTGTTTCTTATgtgagtatac ... attgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAACAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgaagttccatgtgctatttttgtaatgatatgttcgtttggtaattgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC
                                              ttgttct  CT-rich tract
                tatttttgtaatgata  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgagtatactttttgttatttgatagcaacttcctgacttccttataattacacatgcaattgctattccttttttgaagttccatgtgctatttttgtaatgatatgttcgtttggtaattgttctagAGATATTTCGGTGCTGCAATTGGCAAGGGCAGGCAGGCTGCTAAAAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT