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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CGTGAATTGGCGGAGGACGGTTACTCCGGCGTCGAAGTTAGGGTTACGCCGATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgtttctagaaccttccattactttgtggaatcgaatttccattcattcattcataaattgtgtgtttttatggtatatatag

Basic information

species Glycine max
transcript GLYMA16G33230.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os07g41750.1 (Oryza sativa), 5'ss of exon 2
CGTGAATTGGCGGAGGACGGTTACTCCGGCGTCGAAGTTAGGGTTACGCCGATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtg----cgtgtgtttctagaaccttccattactttgtggaatcgaatttccattcattcattcataaattgtgtgtttttatggtatatatag------------
|| ||  | ||||||||||| |||||||||||||| ||  | || || || ||||||||||||||||||||| | |||||| | |||||   ||| || ||||    |||| |||  | | |  |   ||         ||  |||  |||| | |  |   ||     | | | | | | ||| | |  ||              
CGCGAGCTCGCGGAGGACGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGCGCCACCCGCACCCAGAACGTCCTCGgtgagttcgtgagttcgtggcatttctgatctgggcagcgaggcga--ttccgtgcgatttatcccgggt-gcgcgatctgatgctttggatgaatgcgatttcag

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G093902_T02 (Zea mays), 5'ss of exon 2
CGTGAATTGGCGGAGGACGGTTACTCCGGCGTCGAAGTTAGGGTTACGCCGATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgtttctagaaccttccattactttgtggaatcgaatttccattcattcattcataaattgtgtgtttttatgg--tatatatag
|| ||  | |||||||| || |||||||||||||| ||  | || || || ||||||||||||||||||||| | |||||| | || ||   |||||| |||  ||| | ||||| || |  |       |    |    ||||     |||  | | |    || ||| | ||| | | |        |||
CGCGAGCTCGCGGAGGATGGCTACTCCGGCGTCGAGGTCCGCGTCACCCCCATGCGCACCGAGATCATCATCCGTGCCACCCGCACTCAGAACGTTCTCGgtatgtgcgcttctacaagccccgtcccgatcacagctgtgaatac---ttcggttact---gaactgtttttttctctcgatctcgcttag

upper sequence: GLYMA16G33230.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv11s0016g01380.t01 (Vitis vinifera), 5'ss of exon 2
CGTGAATTGGCGGAGGACGGTTACTCCGGCGTCGAAGTTAGGGTTACGCCGATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgtttctagaaccttccattactttgtggaatcgaatttccattcattcattcataaattgtgtgtttttatggtatatatag
 | ||  |||| ||||| || ||||| || ||||| |||||||||||||| |||||||| || |||||||||||||||||  | || ||   |||||| ||||  |   |  ||   |   | | | | || | |   ||  ||||       |||   |     || | || |||| |||  | ||   
AGAGAGCTGGCCGAGGATGGCTACTCTGGTGTCGAGGTTAGGGTTACGCCAATGCGCACTGAAATCATCATCAGAGCCACTCGTACTCAGAACGTTCTTGgtgattcaatggctttgattattcttgagttcgcgtt-tcagatttgttggttttctgactctccttttttgctttt-tggcttttag--

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|298198666|gb|HO042029.1|HO042029
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|7588311|gb|AW704109.1|AW704109
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|6724618|gb|AW309073.1|AW309073
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|192304937|gb|FG997091.1|FG997091
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|4306646|gb|AI443934.1|AI443934
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|298199176|gb|HO042539.1|HO042539
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|151396319|gb|EV266196.1|EV266196
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|15200735|gb|BI424503.1|BI424503
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|298165905|gb|HO008876.1|HO008876
EST:     GATGTGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|192303929|gb|FG995243.1|FG995243
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|4296474|gb|AI442480.1|AI442480
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAAACT-ACCTCAGTGGTGCAGAAGAGG
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAA-CTTACCTCAGTGGTGCAGAAGAGG
EST: gi|298197972|gb|HO039511.1|HO039511
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|17021161|gb|BM092195.1|BM092195
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|9259255|gb|BE347463.1|BE347463
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|192303930|gb|FG995244.1|FG995244
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|298167459|gb|HO012722.1|HO012722
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCGGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|192295866|gb|FG992647.1|FG992647
EST:     ATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: ATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|13240303|gb|BG359612.1|BG359612
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|298194508|gb|HO042980.1|HO042980
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|192305016|gb|FG996134.1|FG996134
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|13563313|gb|BG551533.1|BG551533
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|7030190|gb|AW459973.1|AW459973
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|58025435|gb|CX712176.1|CX712176
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|192326432|gb|FK017704.1|FK017704
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|298174790|gb|HO017899.1|HO017899
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|58015115|gb|CX701857.1|CX701857
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTTTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|58022174|gb|CX708915.1|CX708915
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|298197705|gb|HO045184.1|HO045184
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|192295865|gb|FG992646.1|FG992646
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|58022463|gb|CX709204.1|CX709204
EST:     ATGCGCA-CGNAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: ATGCGCACCG-AGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|298196144|gb|HO044535.1|HO044535
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         ATGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|7146435|gb|AW508357.1|AW508357
EST:     ATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: ATGCGCACCGAGATCATCATCAGAGCCACCAGAA-CCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
EST: gi|15337837|gb|BI498493.1|BI498493
EST:     GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAG                         GTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT
genomic: GATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgt ... gtatatatagGTGAGAAGGGAAGGAGAATTAGGGAACTTACCTCAGTGGTGCAGAAGAGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CGTGAATTGGCGGAGGACGGTTACTCCGGCGTCGAAGTTAGGGTTACGCCGATGCGCACCGAGATCATCATCAGAGCCACCAGAACCCAAGCCGTTCTAGgtgcgtgtgtttctagaaccttccattactttgtggaatcgaatttccattcattcattcataaattgtgtgtttttatggtatatatag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA