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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTTTATGAAGCACTAATGAGGCAAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgtcttttgtatcttctgaacatcattgcaaacttaggtatgttattcaaatttctgatatttatattttgctgcttatcag

Basic information

species Glycine max
transcript GLYMA12G04460.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G04460.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv03s0038g04470.t01 (Vitis vinifera), 5'ss of exon 14
GCTCTTTATGAAGCACTAATGAGGCAAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgtcttttgtatcttctgaacatcattgcaaacttaggtatgttattcaaa----tttctgatatttatattttgct--gcttatcag------
|| ||  ||||||| ||| ||||||| || ||  ||||||||||||| || ||||| |||||||||| ||| ||||||||||      || ||      |      | | | || |     | | | |  |||      ||  |  |  || |||||    |||||          
GCCCTGCATGAAGCTCTATTGAGGCAGGAGGAATTGCTTGCTTACATAGACAGTCAGGAAGAAGCTAAGTTTCGGgtaagttgagtagttttacacataggggtgaacttctaattctttca-gctctcaaaagactcctcctaggtcaatgttttgtgaagcttacattgcataa
















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|213593397|gb|DB975709.1|DB975709
EST:     AAGAAGAGCTGCTTGCTTACATTGCTAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|208029366|gb|GD827838.1|GD827838
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTT
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTT
EST: gi|193432352|gb|FK394738.1|FK394738
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTG
EST: gi|208244936|gb|GE039859.1|GE039859
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGG
EST: gi|57575734|gb|CX548709.1|CX548709
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|193408905|gb|FK372811.1|FK372811
EST:     CTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: CTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|31471098|gb|CD413126.1|CD413126
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGCCTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|193429824|gb|FK395514.1|FK395514
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTT
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTT
EST: gi|208312868|gb|GE111700.1|GE111700
EST:     AAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|16344852|gb|BI970447.1|BI970447
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|208198604|gb|GD998453.1|GD998453
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTG
EST: gi|193457416|gb|FK423182.1|FK423182
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTG
EST: gi|208054934|gb|GD852307.1|GD852307
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|193388900|gb|FK355773.1|FK355773
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAA-AAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTG
EST: gi|42722969|gb|CK768868.1|CK768868
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|193435834|gb|FK399438.1|FK399438
EST:     AGAAGAGCTGCTTGCTTAACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTG
genomic: AGAAGAGCTGCTTGCTTA-CATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTG
EST: gi|208144025|gb|GD943728.1|GD943728
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAAAAGCTAGGTTACGG                         AAGAAGTTTTG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTG
EST: gi|193442232|gb|FK406069.1|FK406069
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGA
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGA
EST: gi|57575553|gb|CX548528.1|CX548528
EST:     AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
genomic: AAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTTGGTTGCTGACAGAAAGAGACTCTGGGAG
EST: gi|207779981|gb|GD753456.1|GD753456
EST:     AGAAGAGCTGCTTGCTTACATTGATAGTCAAAGAAGAAGCTAGGTTACGG                         AAGAAGTTTTGCTGGTGAGTTTT
genomic: AGAAGAGCTGCTTGCTTACATTGATAGTCAA-GAAGAAGCTAGGTTACGGgtaagtttgt ... tgcttatcagAAGAAGTTTTGCTGGTGAGTTTT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTTTATGAAGCACTAATGAGGCAAGAAGAGCTGCTTGCTTACATTGATAGTCAAGAAGAAGCTAGGTTACGGgtaagtttgtcttttgtatcttctgaacatcattgcaaacttaggtatgttattcaaatttctgatatttatattttgctgcttatcag

- - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - -  AGCTGC
- - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC