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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaactgtttattgttttccaaactaatttctattcttggctttggatttattacactttcaaatgtcaaatatgctcttcggattgcatattgaattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTTTCTGGTCCAAGGTGGGAAGCTCTAGTTAAAAAGGGGGCCAAGAAGCAAA

Basic information

species Glycine max
transcript GLYMA08G47790.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G47790.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv01s0150g00190.t01 (Vitis vinifera), 3'ss of exon 5
gtaactgtttattgttttccaaactaatttctattcttggctttggatttattacactttcaaatgtcaaatatgctcttcggattgcatattgaattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTTTCTGGTCCAAGGTGGGAAGCTCTAGTTAAAAAGGGGGCCAAGAAGCAAA
       |  |||  ||| ||| | ||||   || |||   |  || ||||  || |     |    | ||||   || | |||     | ||  || ||  |||| |||||||| ||||||||| |||| |||||||||||||| | |||||| ||||| || || ||||||||||| || || || || |||||||| || |
---gtaataaattaatttacaatcaaattgtcatcctt--ttgagggtttaaaactc-----aggacctaata---tcatgggac----ttttatatgttctagGCTGCAGTAGCTCAAGCAGCACTGGCATACCAGCTCTACCAGAAGAAATTCTCTGGGCCTAGATGGGAAGCTCTGGTGAAGAAAGGTGCCAAGAAACAGA
















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|14991073|gb|BI316746.1|BI316746
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|10709227|gb|BF008951.1|BF008951
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|6963502|gb|AW432195.1|AW432195
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|37997207|gb|CF808796.1|CF808796
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|192327587|gb|FK020634.1|FK020634
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|13481537|gb|BG510880.1|BG510880
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|15000920|gb|BI321734.1|BI321734
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|58024883|gb|CX711624.1|CX711624
EST:     GGCCC-TGNAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: GGCCCTTG-AGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|14259727|gb|BG882635.1|BG882635
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|6719617|gb|AW307264.1|AW307264
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|192309108|gb|FG999391.1|FG999391
EST:     TCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: TCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|9986111|gb|BE660219.1|BE660219
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|58018946|gb|CX705688.1|CX705688
EST:     GGCCC-TGAGAAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: GGCCCTTGAG-AAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|5058472|gb|AI736883.1|AI736883
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|57575715|gb|CX548690.1|CX548690
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|9439855|gb|BE440368.1|BE440368
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGANATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|10846217|gb|BF071272.1|BF071272
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|17021884|gb|BM092918.1|BM092918
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|6847089|gb|AW349379.1|AW349379
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|57575533|gb|CX548508.1|CX548508
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|4304431|gb|AI443618.1|AI443618
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|21889891|gb|BQ743104.1|BQ743104
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|298189058|gb|HO037461.1|HO037461
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|298189327|gb|HO037730.1|HO037730
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|16346820|gb|BI972415.1|BI972415
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|12774774|gb|BG239722.1|BG239722
EST:     TTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: TTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|7692059|gb|AW760174.1|AW760174
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|298172428|gb|HO019468.1|HO019468
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|17963707|gb|BM270453.1|BM270453
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|26269430|gb|CA820493.1|CA820493
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGTGGCCCTTAATCTACGCGGGAAG                         GCAGCGGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|10236155|gb|BE805043.1|BE805043
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|58019244|gb|CX705986.1|CX705986
EST:     CCCCAGAGGCTCTTAATCTACGTGGAAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: CCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
EST: gi|192312884|gb|FK004040.1|FK004040
EST:     AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAG                         GCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT
genomic: AGGCCCTTGAGAAAATTGGCACCCCAGAGGCTCTTAATCTACGTGGGAAGgtaactgttt ... aattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattacactttcaaatgtcaaatatgctcttcggattgcatattgaattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTTTCTGGTCCAAGGTGGGAAGCTCTAGTTAAAAAGGGGGCCAAGAAGCAAA
                                       atattgaattttaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaactgtttattgttttccaaactaatttctattcttggctttggatttattacactttcaaatgtcaaatatgctcttcggattgcatattgaattttacagGCAGCAGTAGCCCAAGCAGCATTGGCTTACCAGCTCTACCAAAGGAAATTTTCTGGTCCAAGGTGGGAAGCTCTAGTTAAAAAGGGGGCCAAGAAGCAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA