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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AATTCCGAGCCGGGTTTCTTGTTAGCACTGTTAACTTCCTCTAATGGCTCATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccctttctctcttccccatgagtgttgctttctcaaagttgagtttttgttaactgggtatgaacttttttctgaacttggtcttgttcagtgg...

Basic information

species Glycine max
transcript GLYMA15G07480.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA15G07480.2 (Glycine max), 5'ss of exon 1
lower sequence: PP1S50_114V6.4 (Physcomitrella patens), 5'ss of exon 1
AATTCCGAGCCGGGTTTCTTGTTAGCACTGTTAACTTCCTCT----AATGGCTCATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccctttctctcttccccatgagtgttgctttctcaaagttgagtttttgttaac-tgggtatgaactttt-ttctgaacttggtcttgttcagtgg
      | | |   ||| |||    ||    |  || |         |||||    || || ||||||||||| ||||||||||| ||||| || |||||||| ||||||      | |   |    ||| ||||   |  ||          | |||||  || ||| | |      |  ||| |||  |   |||    | |||
----TGGCGACAATTTTTTTGCATCCAAAAATCGCTGCTGAGTGGAGATGGCGGGACGGTATGATAGTAATCCGTTCGACGAAGACGAAGTGAATCCCTTCTCTgtaagtaaaa--cgcagcttggtatgtgtgtctgtggctttggaccttttctttgtgcacatggttgtttgtgatggttcagaaaatccgcttcagaactgg
















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|298183413|gb|HO028626.1|HO028626
EST:     ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCC                         GAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
genomic: ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccct ... acacttacagGAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
EST: gi|16346749|gb|BI972344.1|BI972344
EST:     ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCC                         GAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
genomic: ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccct ... acacttacagGAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
EST: gi|16346347|gb|BI971942.1|BI971942
EST:     ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCC                         GAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
genomic: ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccct ... acacttacagGAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
EST: gi|38192157|gb|CF921363.1|CF921363
EST:     ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCC                         GAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
genomic: ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccct ... acacttacagGAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
EST: gi|254315478|gb|GR825287.1|GR825287
EST:     ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCC                         GAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT
genomic: ATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccct ... acacttacagGAACCAGCTGTAAGGGGAAAAACATCAAGCCAATCAAGTTATAGCGGGGGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AATTCCGAGCCGGGTTTCTTGTTAGCACTGTTAACTTCCTCTAATGGCTCATCGCTACGATAGTAATCCCTTCGACGAAGAAGAAGTCAACCCCTTCTCCgtaagtccctttctctcttccccatgagtgttgctttctcaaagttgagtttttgttaactgggtatgaacttttttctgaacttggtcttgttcagtgg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccctttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcccc