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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCAAATTTTGATTCTTTCGATCAAACCCGCAACACCCACCTCACCAAAACCCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtccctcactcatcaccctccttacttctctactacgcttatcaacgacgtcgtttgttatctcacttttttttttaaaaatttctcttctggg...

Basic information

species Glycine max
transcript GLYMA10G09280.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G09280.2 (Glycine max), 5'ss of exon 1
lower sequence: Vv08s0007g02580.t01 (Vitis vinifera), 5'ss of exon 1
CCAAATTTTGATTCTTTCGATCAAACCCGCAACACCCACCTCACCA-AAACCCTACGCA----ACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtccctcactcatcaccctccttacttctctactacgcttatcaacgacgt-cgtttgttatctcactttttt---ttttaaaaatttctcttctggg
       |  ||  ||   |||   |||||  ||  ||  || ||| || | |  | ||    |  || ||||||||||||||| ||||||||| ||||| |||||| |||||||  | |  |     |   ||  |  |||  | | || ||    |  ||   ||| | |  | | | || |    ||   | ||||   |  |   
-----CCTCTATCGTTGGAATCCCTCCCGCCTCAAGCAGATCTCCACAAGCTCCCCACAGAAGAGTCACCCATGACGCTTGGCTCAGGAGGATCGAGTGTTGTGGgtgagtgtccgac-ccgagttttcaatttcttcttctgatcctctgattcttgttgtatctttctaagattaatcttatgggcttgttagattttgttgtt---
















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|8827200|gb|BE210930.1|BE210930
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|192294086|gb|FG986175.1|FG986175
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|38192514|gb|CF921720.1|CF921720
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|13563351|gb|BG551571.1|BG551571
EST:     CCTACGCATCCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCACATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|192328578|gb|FK023568.1|FK023568
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|17022747|gb|BM093781.1|BM093781
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|15662585|gb|BI699948.1|BI699948
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|21677270|gb|BQ629621.1|BQ629621
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|7690948|gb|AW759084.1|AW759084
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|7284283|gb|AW596878.1|AW596878
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|15664086|gb|BI701457.1|BI701457
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|209710536|gb|BW662072.1|BW662072
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGCGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|151393123|gb|EV262998.1|EV262998
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|192307166|gb|FK001194.1|FK001194
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|207841754|gb|GD813638.1|GD813638
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|4314038|gb|AI461157.1|AI461157
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|209724945|gb|BW669635.1|BW669635
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGCGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|27808883|gb|CB063305.1|CB063305
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCATATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|23733678|gb|BU765045.1|BU765045
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|10233465|gb|BE802353.1|BE802353
EST:     ATCCAGTGTCGTGG                         TTCCTAGGAACTTGAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: ATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|209724423|gb|BW662954.1|BW662954
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGCGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|254339698|gb|GR857823.1|GR857823
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|208206857|gb|GE002550.1|GE002550
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGTGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|192294192|gb|FG986281.1|FG986281
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|18041024|gb|BM309318.1|BM309318
EST:     CCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|27426289|gb|CA937809.1|CA937809
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|254339699|gb|GR857824.1|GR857824
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|38193817|gb|CF923023.1|CF923023
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA
EST: gi|209699481|gb|BW667669.1|BW667669
EST:     CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGG                         TTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGCGGAGAAAAAGGAA
genomic: CCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtcc ... ttaaatgcagTTCCTAGGAACTTCAGATTGCTGGAGGAGCTTGAACGTGGAGAAAAAGGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCAAATTTTGATTCTTTCGATCAAACCCGCAACACCCACCTCACCAAAACCCTACGCAACCCATCCATGACGCTTGGCTTAGGAGGATCCAGTGTCGTGGgtcagtgtccctcactcatcaccctccttacttctctactacgcttatcaacgacgtcgtttgttatctcacttttttttttaaaaatttctcttctggg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caccctc