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'   		10  
 5'  3'   		11  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TAGCCTCTGCAACAGAGTCTCAGATCTCTGCATTCCAATTCCCATGGCTGGTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtccttattttgttgctgctttttgccaaagttgtgattttgtgaactgggtatgctcaaagttgtgattttgtgaactgggtatgctcaaagttg...

Basic information

species Glycine max
transcript GLYMA07G31090.3
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G31090.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G448715_T02 (Zea mays), 5'ss of exon 1
TAGCCTCTGCAACAGAGTCT-CAGATCTCTGCATTCCAATTCCCATGGCTGGTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtccttattttgttgctgcttttt-gccaaagttgtgattttgtgaactgggtatgctcaaagttgtgattttgtgaactgggtatgctcaaagttg
 | |  |  |  ||  |||  |  |          |  |    |||||| || ||||||||| | ||||||||||| |||||||| || ||||||||||| ||| |  |      |  | |  ||   |   |   |   |       |   | ||| |       | ||    | ||  | || |||| |  ||  ||   
-ATCTCCATCGCCATTGTCGGCGCAAGCAAAGGGGCGGAGCAGCATGGCGGGGCGCTATGACGGCAACCCCTTCGAGGAGGAAGACGTGAACCCTTTCTCGgtacgcgcgcccaatcctccgcctccctcatcttggcgatcccaccattgcccgggcacatatctactttccttatttggcaccgggttttttccgagaa-

upper sequence: GLYMA07G31090.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G448715_T01 (Zea mays), 5'ss of exon 1
TAGCCTCTGCAACAGAGTCT-CAGATCTCTGCATTCCAATTCCCATGGCTGGTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtccttattttgttgctgcttt-ttgccaaagttgtgattttgtgaactgggtatgctcaaagttgtgattttgtgaactgggtatgctc--aaagttg-
 | |  |  |  ||  |||  |  |          |  |    |||||| || ||||||||| | ||||||||||| |||||||| || ||||||||||| ||| |  |      |  | |  ||   |   |   |   |       |   | ||| |       | ||    | ||  | || |||| |  ||  | | |   
-ATCTCCATCGCCATTGTCGGCGCAAGCAAAGGGGCGGAGCAGCATGGCGGGGCGCTATGACGGCAACCCCTTCGAGGAGGAAGACGTGAACCCTTTCTCGgtacgcgcgcccaatcctccgcctccctcatcttggcgatcccaccattgcccgggcacatatctactttccttatttggcaccgggttttttccgagaatcag
















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|20812614|gb|BQ297092.1|BQ297092
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|192297701|gb|FG989591.1|FG989591
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|10842945|gb|BF066303.1|BF066303
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|7146910|gb|AW508832.1|AW508832
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|298199298|gb|HO042661.1|HO042661
EST:     GTCGCTATGACAGTAACCCCTTCGACGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAATGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|19453024|gb|BM954434.1|BM954434
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|9259727|gb|BE347874.1|BE347874
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|23057519|gb|BU578193.1|BU578193
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|19934355|gb|BQ079383.1|BQ079383
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|42722448|gb|CK768347.1|CK768347
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|16996884|gb|BM086256.1|BM086256
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|151409246|gb|EV279054.1|EV279054
EST:     GTCGCTATGGCAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
EST: gi|254315266|gb|GR830259.1|GR830259
EST:     GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCT                         AATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG
genomic: GTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtcctt ... aaaatgttagAATCCTGGAAGTGTTCCCGCTGCCACTAATTCAAGGCTTCCACCTCTTAAG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TAGCCTCTGCAACAGAGTCTCAGATCTCTGCATTCCAATTCCCATGGCTGGTCGCTATGACAGTAACCCCTTCGATGAGGAAGAAGTTAACCCTTTCTCTgtaagtccttattttgttgctgctttttgccaaagttgtgattttgtgaactgggtatgctcaaagttgtgattttgtgaactgggtatgctcaaagttg

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGT