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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TACTAGGAAAGTTTGTGAGCCACTAGAGGAAGATTCCTTCAGACCAATTCTTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatcaactttttgaatatgttactgatccttctttaattgtggatgtggtcaactaaattatgtcctcttttttttaattattatttcag

Basic information

species Glycine max
transcript GLYMA13G10640.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G10640.1 (Glycine max), 5'ss of exon 4
lower sequence: GRMZM5G860590_T02 (Zea mays), 5'ss of exon 4
TACTAGGAAAGTTTGTGAGCCACTAGAGGAAGATTCCTTCAGACCAATTCTTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatcaactttttgaatatgttactga-tccttctttaattgtggatgtggtcaactaaattatgtcctcttttttttaattattatttcag
 ||  | ||  | |||  ||| || ||||| ||  | ||| | || || || ||||||||||||||||| |||||| | || ||||| ||||| |||||||| | |      || |||  |   |  |||  | | ||   | |||  | ||||     ||||||        |        ||    |  | |||
AACGCGCAAGATCTGTTCGCCGCTGGAGGAGGACGCTTTCCGCCCCATCCTCCACCACTACGACGGCCCCAAGTTCAGGCTGGAGCTCAGTGTCCCTGAGgtgacctcttctttcttgcctgcctgcctgcctgcctcaacacttgctgctgtgcaaggctaaatggctaatccagaaaaaaaaaatctcatgcag

upper sequence: GLYMA13G10640.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G42050.1 (Arabidopsis thaliana), 5'ss of exon 3
TACTAGGAAAGTTTGTGAGCCACTAGAGGAAGATTCCTTCAGACCAATTCTTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcat----caactttttgaatatgttactgatccttctttaattgtggatgtggtcaactaaattatgtcctcttttttttaattattatttcag
 || |||||||| |||  |||||| || |||||||| ||| |||| ||| | |||||||||||||| ||||||||||| || || || ||||| ||||||||| |  |    || ||| || | |     ||    | || |||  ||         ||| |     ||  ||  | |||||   |             
AACGAGGAAAGTATGTTTGCCACTGGAAGAAGATTCTTTCCGACCCATTTTGCACCACTACGACGGTCCTAAGTTCCGACTCGAACTCAGTGTCCCTGAGgtacgtttttttcatcttctttagttcacaacca--cttttttttcttacattcaaagtctaacgctttg-gttgtgtttttggcag------------
















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|308098890|gb|HO760731.1|HO760731
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|254337387|gb|GR849340.1|GR849340
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|254331893|gb|GR846203.1|GR846203
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|151402959|gb|EV272772.1|EV272772
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|58024390|gb|CX711131.1|CX711131
EST:     TTCACCACTAAGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|5057954|gb|AI736430.1|AI736430
EST:     TCACAACTACGAGGGCCCTA-GTTCCGTCTTTGAGCTG-GTGTGCCTGAG                         GCACTGGTCT-TTCTTGGATATTTT
genomic: TCACCACTACGACGGCCCTAAGTTCCGTCTT-GAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTG-TCTCTTCT-GGATATTTT
EST: gi|151395760|gb|EV265637.1|EV265637
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|4396241|gb|AI495238.1|AI495238
EST:     TCACCACTACGACGGCCCTAAGTTCCGTCTTGGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TCACCACTACGACGGCCCTAAGTTCCGTCTTG-AGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|38192535|gb|CF921741.1|CF921741
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|15000771|gb|BI321585.1|BI321585
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACC
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACC
EST: gi|6455085|gb|AW185768.1|AW185768
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|254321753|gb|GR825070.1|GR825070
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTG-CTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|213611124|gb|DB974998.1|DB974998
EST:     ATCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|11274747|gb|BF325082.1|BF325082
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCA
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCA
EST: gi|19937024|gb|BQ081113.1|BQ081113
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|6341582|gb|AW164406.1|AW164406
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|21600694|gb|BQ611025.1|BQ611025
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|213594925|gb|DB977239.1|DB977239
EST:     ATCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|9204543|gb|BE330767.1|BE330767
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|254348940|gb|GR852619.1|GR852619
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|120494939|gb|EH223106.1|EH223106
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|4313652|gb|AI460771.1|AI460771
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAA
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAA
EST: gi|254331894|gb|GR846204.1|GR846204
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|9204544|gb|BE330768.1|BE330768
EST:     TTCACCACTACGACGGCCATAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|10843221|gb|BF066529.1|BF066529
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAC                         GCACTGTCTCTTCTGGATATTTT-GCAA
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAA
EST: gi|58017712|gb|CX704454.1|CX704454
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|7588504|gb|AW704360.1|AW704360
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|214006357|gb|DB985747.1|DB985747
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|38193783|gb|CF922989.1|CF922989
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCNTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
EST: gi|58018450|gb|CX705192.1|CX705192
EST:     TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAG                         GCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT
genomic: TTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatca ... attatttcagGCACTGTCTCTTCTGGATATTTTTGCAAACCAGAACAGTTTCGATGACATT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TACTAGGAAAGTTTGTGAGCCACTAGAGGAAGATTCCTTCAGACCAATTCTTCACCACTACGACGGCCCTAAGTTCCGTCTTGAGCTGAGTGTGCCTGAGgtaagcatcaactttttgaatatgttactgatccttctttaattgtggatgtggtcaactaaattatgtcctcttttttttaattattatttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA