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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttgagctttgataccaacaccgtgctggattatggaaattaggctgaccttgatctttttttgttttgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACACCCAAAGTTCAAACGAAAGGCCGATGACCTTTTTGTAGAACACACATTGT

Basic information

species Glycine max
transcript GLYMA12G31620.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G31620.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G028218_T01 (Zea mays), 3'ss of exon 4
--------------------------------gtatgttgagctttgataccaacaccgtgctggattatggaaattaggctgacct-tgatctttttttgttt---tgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACACCCAAAGTTCAAACGAAAGGCCGATGACCTTTTTGTAGAACACACATTGT
                                 |   |   ||    |    |   | || ||   | |||      |   ||   | | |   | || || |    ||||||||||||| | |||||| |||||  ||||||| || || |||||||| || || ||||||||  |||||| ||||||||| ||    || |||||| || 
gtaatgactccttagtcctcagttctaaagttattcctctggcacaaactaaacttctgttctaactaatgtgtgcaaccttgggttctaactatgttgtgctcgtgtgcagCCTGATACTGCCACTGGAGATATCATCTTTGTTCTCCAGCAGAAGGAGCATCCCAAGTTCAAGAGAAAGGGCGATGACCTCTTCTACGAGCACACACTGA

upper sequence: GLYMA12G31620.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G063238_T01 (Zea mays), 3'ss of exon 7
-----------------------------------------------------------------------------------------------gtatgttgagctttgataccaacaccgtgctggat----tatggaaattaggctgaccttgatctttttttgttttgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACACCCAAAGTTCAAACGAAAGGCCGATGACCTTTTTGTAGAACACACATTGT
                                                                                                |   |   ||    |    |   | || ||   |    | || ||  | || |       | ||| |  |  | ||||||||||||| | |||||| |||||  ||||||| || || |||||||| || || ||||||||  |||||| ||||||||| ||    || |||||| || 
gtagtttagaaaggtatgcagaacgggcagaagatcacattccctggcgaagctgatgaagcggtaatgactccttagtcctccgttctaaagttattcctctggcacaaactaaacttctgttctaactaatgtgtgcaaccttgggttctaactaccttgtgctcgtgtgcagCCTGATACTGCCACTGGAGATATCATCTTTGTTCTCCAGCAGAAGGAGCATCCCAAGTTCAAGAGAAAGGGCGATGACCTCTTCTATGAGCACACACTGA

upper sequence: GLYMA12G31620.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G433854_T01 (Zea mays), 3'ss of exon 3
--------------------------------gtatgttgagctttgataccaacaccgtgctggattatggaaattaggctgacct-tgatctttttttgttt---tgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACACCCAAAGTTCAAACGAAAGGCCGATGACCTTTTTGTAGAACACACATTGT
                                 |   |   ||    |    |   | || ||   | |||      |   ||   | | |   | || || ||   ||||||||||||| | |||||| |||||  ||||||| || || |||||||| || || ||||||||  |||||| ||||||||| ||     | |||||| || 
gtaatgactccttagtcctcatttctaaagttattcctctggcacaaactaaacttctgttctaactaatgtgtgcaaccttgggttctaactatcttgtgcttgtgtgcagCCTGATACTGCCACTGGAGATATCATCTTTGTTCTCCAGCAGAAGGAGCATCCCAAGTTCAAGAGAAAGGGCGATGACCTCTTCCACAAGCACACACTGA

upper sequence: GLYMA12G31620.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G434839_T01 (Zea mays), 3'ss of exon 11
--------------------------------gtatgttgagctttgataccaacaccgtgctggat----tatggaaattaggctgaccttgatctttttttgttttgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACACCCAAAGTTCAAACGAAAGGCCGATGACCTTTTTGTAGAACACACATTGT
                                 |   |   ||    |    |   | || ||   |    | || ||  | || |       ||||| |  |  | ||||||||||||| | |||||| |||||  ||||||| || || || ||||| || || ||||||||  |||||| ||||||||| ||    || |||||| || 
gtaatgactccttagtcctcagttctaaagttattcctctggcacaaactaaacttctgttctaactaatgtgtgcaaccttgggttctaactatcttgtgctcatgtgcagCCTGATACTGCCACTGGAGATATCATCTTTGTTCTCCAGCAAAAGGAGCATCCCAAGTTCAAGAGAAAGGGCGATGACCTCTTCTACGAGCACACACTGA

upper sequence: GLYMA12G31620.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv06s0080g01230.t01 (Vitis vinifera), 3'ss of exon 4
-----gtatgttgagctttg--ataccaacaccgtgctggattatggaaattaggctgacc-ttgatctttttttgttttgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACACCCAAAGTTCAAACGAAAGGCCGATGACCTTTTTGTAGAACACACATTGT
      | || |||   ||   |||| | |        |   | ||   || |   |  |   |  | ||   |  ||||||||||||| ||||||||||||||||| || |||||||| || || |||||||| ||||| |||||  ||||||  |||||||||||||| || ||||| ||||
gtatgttttgatgaatcttataatactatctatagatagatatttgttgatgattttatctgcttgttttgggtcattttgcagCCTGACACAGTCACTGGGGATATAGTTTTTGTCCTCCAGCAAAAGGAACATCCAAAATTCAAGAGAAAGGGGGATGACCTTTTTGTGGAGCACACCTTGT

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|11412357|gb|BF424368.1|BF424368
EST:     GAATGCAGAATGGACAGAAGATTACATTCCCTGGTGAAGCTGATGAAGCA                         CCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACAC
genomic: GAATGCAGAATGGACAGAAGATTACATTCCCTGGTGAAGCTGATGAAGCAgtatgttgag ... tgttttgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acaccgtgctggattatggaaattaggctgaccttgatctttttttgttttgcagCCTGATACAGTCACTGGGGATATTGTCTTTGTCCTACAACAGAAGGAACACCCAAAGTTCAAACGAAAGGCCGATGACCTTTTTGTAGAACACACATTGT
                                     tctttttttgttttgc  CT-rich tract
                                    atctttttttgtttt  TA-rich tract