Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CTCCTCCGAAGAATTACTATTTGCAGGTGGACACTGGCAGTGACATTATGTGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttctcatctttttagtttaagctacccttattatcttcattacttgccaaacgtgcttgcttagtttttctttttttgtgttttgtgtatgca...

Basic information

species Glycine max
transcript GLYMA18G51920.1
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G51920.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv05s0062g01370.t01 (Vitis vinifera), 5'ss of exon 2
CTCCTCCGAAGAATTACTATTTGCAGGTGGACACTGGCAGTGACATTATGTGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttctcatctt-tttagtttaagctacccttattatcttcattacttgccaaacgtgctt--gcttagtttttctt------tttttgtgttttgtgtatgca--------------------------------
  ||  | | | | |||||| | || || || || || ||||||||||||||||| ||||| ||||||||||| ||||| ||||  | ||||   ||||||||| ||||||||||||  |   |    | |||   | | || ||  |   |||     | ||| |   |  | |||| |||      |||| |  ||   | | ||||                                
-ACCGGCAAGGGACTACTATGTACAAGTAGATACAGGAAGTGACATTATGTGGGTTAATTGTATTCAGTGCAATGAATGTCCCAAGAAAAGCTCTCTTGGTgtaggcttctcatcttgctctatgcttgttacttgtttgatttttctgtgttgtattccttgcattaacaaaattttccttcaaatattttagcattgattttttgcattttgttttttttctttgttttcttctaacag
















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|27426515|gb|CA938035.1|CA938035
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|213610737|gb|DB963123.1|DB963123
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGCAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|23726643|gb|BU761321.1|BU761321
EST:     TTGCATTCAGTGTAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|120492464|gb|EH220631.1|EH220631
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|209707190|gb|BW656808.1|BW656808
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|298192972|gb|HO033417.1|HO033417
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|298182938|gb|HO028151.1|HO028151
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|298192897|gb|HO033331.1|HO033331
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
EST: gi|213613481|gb|DB956939.1|DB956939
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCTTACACTCTACGACATA
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATA
EST: gi|298186811|gb|HO037444.1|HO037444
EST:     TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGG                         TATGGACCCTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT
genomic: TGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttc ... gtgtatcgaaGATGGACCTTACACTCTACGACATAAAGGAATCCTCCTCTGGTAAATTTGT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CTCCTCCGAAGAATTACTATTTGCAGGTGGACACTGGCAGTGACATTATGTGGGTGAATTGCATTCAGTGCAAAGAATGCCCCACCAGAAGCAACCTTGGtgtatgcttctcatctttttagtttaagctacccttattatcttcattacttgccaaacgtgcttgcttagtttttctttttttgtgttttgtgtatgca

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA