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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGAACTAGACAGGTTCTGTGATGCTCTTATTTCCATTAGACATGAAATTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaaaaaaacattgttcttcatttgtatgatgttactaagaagagaaatacttgttttagtttgattgtctaatagtacacaacattggctgcatatttcattcacaatttcaaccaagttcgtgaactttttattgattatctataatgttctacag

Basic information

species Glycine max
transcript GLYMA17G34480.1
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G34480.1 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g51410.1 (Oryza sativa), 5'ss of exon 13
GCTGAACTAGACAGGTTCTGTGATGCTCTTATTTCCATTAGACATGAAATTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaaaaaaacattgttcttcatttgtatgatgttactaagaagagaaatacttgttttagtttgattgtctaatagtacacaacattggctgcatatttcattcacaatttcaaccaagttcgtgaactttttattgattatctataatgttctacag
|| |||||||||||||||||||||||||| || || || ||  | |||||||| || || || |  || || || ||  | ||||||||||| || |||||||||  |  |  | |||| | |   ||| | | || |||    ||    || | | |             | ||||    || ||         || || | | |  | |||||                                                
GCCGAACTAGACAGGTTCTGTGATGCTCTAATCTCAATCAGGGAAGAAATTGCAGAAATCGAAAGTGGCAAAGCAGATGTGAACAACAATGTCCTCAAGgtaaaa-taccagtatattgctatctgttt-tcttatatta----gattgcaagttcgtaacac-------ctatctatctatatacggg--caattgtat-tcttacccccaatt------------------------------------------------

upper sequence: GLYMA17G34480.1 (Glycine max), 5'ss of exon 8
lower sequence: AT4G33010.1 (Arabidopsis thaliana), 5'ss of exon 12
GCTGAACTAGACAGGTTCTGTGATGCTCTTATTTCCATTAGACATGAAATTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaaaaaaacattgttcttcatttgtatgatgttactaagaagagaaatacttgttttagtttgattgtctaatagtacacaacattggctgcatatttcattcacaatttcaaccaagttcgtgaactttttattgattatctataatgttctacag
|| || |||||||||||||| |||||||| ||||| || ||  | ||||||||  ||||||| ||||||||||| ||  |  | ||||| || || |||||||  |  |||| | |    |  ||||    || || |  | || || |  | |  | |    ||||    |          | ||     ||| ||  | |||  |                                                        
GCGGAGCTAGACAGGTTCTGCGATGCTCTCATTTCAATCAGGGAAGAAATTGCACAGATTGAAAAAGGAAATGCAGATGTCCAGAACAACGTTCTCAAGgtaattaggaaaacaaag-acttatcata---attatat--ccaataataatattgttcggagaagttgagat--------tcatacgttggtggttgtttgttttctcag-----------------------------------------------------

upper sequence: GLYMA17G34480.1 (Glycine max), 5'ss of exon 8
lower sequence: AT4G33010.2 (Arabidopsis thaliana), 5'ss of exon 12
GCTGAACTAGACAGGTTCTGTGATGCTCTTATTTCCATTAGACATGAAATTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaaaaaaacattgttcttcatttgtatgatgttactaagaagagaaatacttgttttagtttgattgtctaatagtacacaacattggctgcatatttcattcacaatttcaaccaagttcgtgaactttttattgattatctataatgttctacag
|| || |||||||||||||| |||||||| ||||| || ||  | ||||||||  ||||||| ||||||||||| ||  |  | ||||| || || |||||||  |  |||| | |    |  ||||    || || |  | || || |  | |  | |    ||||    |          | ||     ||| ||  | |||  |     |                                                  
GCGGAGCTAGACAGGTTCTGCGATGCTCTCATTTCAATCAGGGAAGAAATTGCACAGATTGAAAAAGGAAATGCAGATGTCCAGAACAACGTTCTCAAGgtaattaggaaaacaaag-acttatcata---attatat--ccaataataatattgttcggagaagttgagat--------tcatacgttggtggttgtttgttttctcagggag-------------------------------------------------

upper sequence: GLYMA17G34480.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv04s0008g01300.t01 (Vitis vinifera), 5'ss of exon 13
GCTGAACTAGACAGGTTCTGTGATGCTCTTATTTCCATTAGACATGAAATTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaaaaaaacattgttcttc-atttgtatg-atgttactaagaagagaaatacttgttttagtttga-ttgtctaatagtac----acaacattggctgcatatttcattcacaatttcaaccaagttcgtgaac--tttttattgattatctataatgttctacag
|| ||  |||||||||| |||||||||||||| ||||||||| | ||||||||  |||||||||| ||||| |||||| || |||||||||| || |||||||||           ||   |    || ||| |  || ||  ||  || |   ||      || | ||| | ||||    | || |    |||    ||| ||| | ||| ||    ||||  |    | ||  ||||     ||||  |||  | | | ||       ||
GCAGAGTTAGACAGGTTTTGTGATGCTCTTATCTCCATTAGAAAAGAAATTGCACAGATTGAGAATGGAAAAGCTGACGTTCACAACAATGTCCTAAAGgtaaaagggctcgtttcttcaccacagatatgttttcatttttatagtaataatgatgtgcaattgaatttaaattgtgatgttgtgcctatacacttctggatgc-tttttaatgagtaattatagttcaattattgaaaagcatttagagatattatctgataagtgcaag

upper sequence: GLYMA17G34480.1 (Glycine max), 5'ss of exon 8
lower sequence: Vv11s0016g02280.t01 (Vitis vinifera), 5'ss of exon 14
GCTGAACTAGACAGGTTCTGTGATGCTCTTATTTCCATTAGACATGAAATTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaaaaaaaca--ttgttcttcatttgtatgatgttactaagaagagaaatacttgttttagtttgattgtctaatagtacacaacattggctgcatatttcattcacaatttcaaccaagttcgtgaactttttattgattatctataatgttctacag
|| ||  ||||||| || |||||||| || || ||||| ||| | ||||||||| ||||||||||||| || |||||   |||||||||||| || |||||||||   |  |||    |||||   |  ||    | |   || | |     || |    |      |     | |||||  |   |     |  || |                                                                  
GCAGAGTTAGACAGATTTTGTGATGCCCTGATATCCATCAGAGAGGAAATTGCTCAGATTGAGAAAGGGAAAGCTGATCCTAACAACAATGTTCTCAAGgtaaaagagatgaaattgtttgttaaccgcttcacaggttccacaacgtcttcaattctcggacggcttccagatatctaactgagaattgtgtgtgcag------------------------------------------------------------------

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|8670174|gb|BE191281.1|BE191281
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|214008648|gb|DB987469.1|DB987469
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGTG-TGATGCATGGACAAAACC
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATG-GCTGATGCATGGACAAAACC
EST: gi|8670456|gb|BE191563.1|BE191563
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|9204891|gb|BE331115.1|BE331115
EST:     TTGCTGATATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|6914907|gb|AW396437.1|AW396437
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|16279018|gb|BI943214.1|BI943214
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|120495075|gb|EH223242.1|EH223242
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|151406172|gb|EV275987.1|EV275987
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|12688444|gb|BG154780.1|BG154780
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|9258386|gb|BE346525.1|BE346525
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|213587469|gb|DB979089.1|DB979089
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|9440439|gb|BE440944.1|BE440944
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|16279323|gb|BI943375.1|BI943375
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         ATCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|31461853|gb|CD403881.1|CD403881
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|6914800|gb|AW396330.1|AW396330
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|21594068|gb|BQ610030.1|BQ610030
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|9205064|gb|BE331288.1|BE331288
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|5607086|gb|AI901184.1|AI901184
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
EST: gi|8670007|gb|BE191114.1|BE191114
EST:     TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAG                         AGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA
genomic: TTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaa ... tgttctacagAGCGCCCCTCATCCACCATCACTGCTCATGGCTGATGCATGGACAAAACCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGAACTAGACAGGTTCTGTGATGCTCTTATTTCCATTAGACATGAAATTGCTGAGATTGAGAAAGGAAATGCTGACATTAACAACAATGTACTTAAGgtaaaaacaaaaaaacattgttcttcatttgtatgatgttactaagaagagaaatacttgttttagtttgattgtctaatagtacacaacattggctgcatatttcattcacaatttcaaccaagttcgtgaactttttattgattatctataatgttctacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG