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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAAGTGCGTCTCTGAAGAAATCCAACACAACATTGTCGTTTTGGCCGATTACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttttcccttccattacgacacccttttgcgatttctgtcatgggttcttcttcaattactcattagattctctttcccgtcttctgatttgtt...

Basic information

species Glycine max
transcript GLYMA05G30330.1
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G30330.1 (Glycine max), 5'ss of exon 1
lower sequence: Vv12s0034g01440.t01 (Vitis vinifera), 5'ss of exon 1
CAAGTGCGTCTCTGAAGAAATCCAACACAACATTGTCGTTTTGGCCGATTACGTCGTTATCCCCAGTGATCACACCCA---CAACCCCACCATCGCCGTCAAGgtactctttttcccttccattacgacacccttttgcgatttctgtcatgggttcttcttcaattactcattagattctct------ttcccgtcttctgatttgtt
   ||||||||| |||||||||||  ||||| | |||||||||||||||||| |||| |||||    || || |||||   || |||||||||| || |||||||  | ||||||  | ||   |    ||||  || ||       |||    ||| ||||  |   |   || | || |         |   |   |   |||  | 
---GTGCGTCTCCGAAGAAATCCAGAACAACGTCGTCGTTTTGGCCGATTACCTCGTCATCCCAGACGACCATACCCATTCCAGCCCCACCATCTCCATCAAGgt-ttgtttttctttgcccccagtttaccccctttcgtccatcttca--aattcgtctttgac--cctgtttggttgtagagaaaactagggaaatgaaattaat-
















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|298169454|gb|HO020814.1|HO020814
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|192325154|gb|FK019085.1|FK019085
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTCCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298181707|gb|HO025882.1|HO025882
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298165642|gb|HO011691.1|HO011691
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298194557|gb|HO043029.1|HO043029
EST:     ACGTCGTTATCCCCGGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|192314293|gb|FK007031.1|FK007031
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAGG                         GTGACGTCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|207801817|gb|GD775217.1|GD775217
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|151407142|gb|EV276957.1|EV276957
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATAACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298177574|gb|HO027241.1|HO027241
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAAAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|209712647|gb|BW684577.1|BW684577
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|208188003|gb|GD986817.1|GD986817
EST:     GTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: GTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|151394892|gb|EV264763.1|EV264763
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298173418|gb|HO016754.1|HO016754
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|193320567|gb|FK286494.1|FK286494
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GCGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|192314294|gb|FK007032.1|FK007032
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAGG                         GTGACGTCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298196518|gb|HO041261.1|HO041261
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAT                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|192322896|gb|FK014827.1|FK014827
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|151411095|gb|EV280906.1|EV280906
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTCCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|151405471|gb|EV275285.1|EV275285
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298178629|gb|HO024364.1|HO024364
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
EST: gi|298163990|gb|HO013635.1|HO013635
EST:     ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAG                         GTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT
genomic: ACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttt ... tttcctttagGTGACATCACCATATGGAAACAATCTTCATCACAAGGAGAACACAACACAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CAAGTGCGTCTCTGAAGAAATCCAACACAACATTGTCGTTTTGGCCGATTACGTCGTTATCCCCAGTGATCACACCCACAACCCCACCATCGCCGTCAAGgtactctttttcccttccattacgacacccttttgcgatttctgtcatgggttcttcttcaattactcattagattctctttcccgtcttctgatttgtt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttccc