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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttatttgtatattttacaaatgaactaagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca...

Basic information

species Glycine max
transcript GLYMA04G34170.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g08960.2 (Oryza sativa), 5'ss of exon 5
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttatttgtatattttacaaatgaactaagcaagcagatattttgtacatcattaaat-ctatcactaaaattttcattttc--tttca
||||||||||||| || || || || |||||||||||||| |||||||| || ||||||||||| ||||||||||||||||| ||||||||| | | || |||| | ||| | | | | || ||| | || ||| | || || |||| || |||
TTTATGCTGATGGGAGCATATGCTTAGATATACTACAAAACCAGTGGAGCCCCATATATGATGTAGCTGCTATACTCACATCCATCCAGgtaga---tgatgccttttttgggggtattagcatgtcatgatgtcctgtcatgtttgttgcaatattttgtatcatgtttataattcgtgcttctgattttg

upper sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G110983_T03 (Zea mays), 5'ss of exon 3
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttat-ttgtatattttacaaatgaac-taagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca
|||||||||||||||| || || || ||||| || || |||||||||||||| ||||||||||| ||||| |||||||| || ||||||||| | | | || || ||| | |||||| || | | | |||| || | | || ||| ||| ||| | |
TTTATGCTGATGGAAGCATATGCTTAGATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt--

upper sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G110983_T02 (Zea mays), 5'ss of exon 4
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttat-ttgtatattttacaaatgaac-taagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca
|||| || || |||||||||||||| ||||||||||| ||||| |||||||| || ||||||||| | | | || || ||| | |||||| || | | | |||| || | | || ||| ||| ||| | |
---------------------------ATATCCTGCAGAATCAGTGGAGTCCGATATATGATGTAGCTGCGATACTCACGTCAATCCAGgtacaaccatacaagaaatcttttatttcttacaagagattattgtttttccaacatttgtaacttttgcttgttatacagtaacattcaactttgcagt--

upper sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv17s0000g05820.t01 (Vitis vinifera), 5'ss of exon 5
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttatttgtatattttacaaatgaactaagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca-
| ||||| ||||||||||||||| | ||||| |||||||||||||||||||||||||||||||| || |||||||| || ||||| ||||||| || | ||| ||| ||| | | | | | || || | || | | | | || | || | | |
TCTATGCAGATGGAAGTATTTGTCTCGATATTCTACAAAATCAGTGGAGTCCTATATATGATGTAGCAGCTATACTTACGTCTATTCAGgtattgtc-aatatacaattattatgtggataatgttgccattgtttttagttaacaattgtatgagggacttaactacaagaaaatgtgaccattcatat

upper sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
lower sequence: EFJ17802 (Selaginella moellendorffii), 5'ss of exon 4
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttatttgtatattttacaaatgaactaagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca
|||||||||||||||||||||| | || ||||| |||||||| |||||||| || || ||||| || || || || || || || ||||| | | | |||| | | | | || || || | | | || | | |
TTTATGCTGATGGAAGTATTTGCCTCGACATACTGCAAAATCAATGGAGTCCGATCTACGATGTTGCGGCAATTCTTACGTCCATACAGgtttggttt----tttttctcgcctttgttggaatagactttcttacacttatccatcgcag--------------------------------------

upper sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
lower sequence: EFJ23951 (Selaginella moellendorffii), 5'ss of exon 4
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttatttgtatattttacaaatgaactaagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca
||||||| |||||||| |||||| | || || || |||||||||||||| || || |||||||| || || ||||| ||||| |||||||| | | | | | | | | | | | ||| |||| | |||| | || |
TTTATGCCGATGGAAGCATTTGTCTCGACATCCTCCAAAATCAGTGGAGCCCGATTTATGATGTTGCCGCAATACTGACATCGATCCAGgt-ttgcttggaagtgt-----tgagctgtgaacactgact--ccaagtttttctttttgttcttgttcttccag-------------------------

upper sequence: GLYMA04G34170.2 (Glycine max), 5'ss of exon 5
lower sequence: EFJ21576 (Selaginella moellendorffii), 5'ss of exon 4
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttatttgtatattttacaaatgaactaagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca-
||||||| |||||||| |||||| | || || || |||||||||||||| || || |||||||| || || ||||| ||||| |||||||| || ||| | | || || || | | | || | || | | || | | ||| | ||||| ||
TTTATGCCGATGGAAGCATTTGTCTCGACATCCTCCAAAATCAGTGGAGCCCGATCTATGATGTTGCCGCAATACTGACATCGATCCAGgt-------------ttgcttgcaagtgtt------gagctgcgaacactga------------ctccaagtttttcttttcgttcttcttgttcttccag

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|26057599|gb|CA800513.1|CA800513
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|298176667|gb|HO026788.1|HO026788
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|19938102|gb|BQ081561.1|BQ081561
EST:     CTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: CTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|21675821|gb|BQ628172.1|BQ628172
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|8826329|gb|BE210059.1|BE210059
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|19937736|gb|BQ081401.1|BQ081401
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|193330724|gb|FK296216.1|FK296216
EST:     AGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: AGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|9258746|gb|BE346893.1|BE346893
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|20813899|gb|BQ298377.1|BQ298377
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|19937295|gb|BQ081233.1|BQ081233
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|10709694|gb|BF009418.1|BF009418
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|192330965|gb|FK023120.1|FK023120
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTTTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|4313968|gb|AI461087.1|AI461087
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCANATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|151406462|gb|EV276277.1|EV276277
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|254315330|gb|GR825139.1|GR825139
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|15286715|gb|BI470606.1|BI470606
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAACAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|7284147|gb|AW596745.1|AW596745
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTGTGTGATCCCAACCCAAATTCTGCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|27424249|gb|CA935769.1|CA935769
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|9566017|gb|BE475588.1|BE475588
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|254315329|gb|GR825138.1|GR825138
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|151409661|gb|EV279469.1|EV279469
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|192297673|gb|FG989937.1|FG989937
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|207705526|gb|GD689420.1|GD689420
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTGTCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|254330304|gb|GR841569.1|GR841569
EST:     TCAGTGGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCCTGCAAACTCTGAAGCAGC
genomic: TCAGT-GGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCT-CCTGCAAACTCTGAAGCAGC
EST: gi|14990785|gb|BI316458.1|BI316458
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|23733374|gb|BU764884.1|BU764884
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|213603132|gb|DB960423.1|DB960423
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|6847744|gb|AW350034.1|AW350034
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
EST: gi|27445972|gb|CA953095.1|CA953095
EST:     ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAG                         TCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT
genomic: ATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatcta ... tcctttgcagTCATTGCTTTGTGATCCCAACCCAAATTCTCCTGCAAACTCTGAAGCAGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTATGCTGATGGAAGTATTTGTTTGGATATACTACAAAATCAGTGGAGTCCTATATATGATGTGGCTGCTATACTCACATCTATCCAGgtatcatctagtattttatttgtatattttacaaatgaactaagcaagcagatattttgtacatcattaaatctatcactaaaattttcattttctttca

- - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT