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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttcattctcaacctggaatttctgttgtctgtttttcactttctatctgaattctgattgttatcatgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT

Basic information

species Glycine max
transcript GLYMA10G01280.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os05g04340.2 (Oryza sativa), 3'ss of exon 7
gtatgttcattctcaacctggaatttctgttgtctgtttttcactttctatctgaattctgattgttatcatgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT
||||| ||| ||   ||| |  | |        |   ||  || | ||| |   |   || ||                |||||  ||  | | | |||| ||||| |||||||| || ||||||||||| || |||||||| ||||| || || || ||||||||||| ||||| ||||| || || |||||| |||
gtatgatcactcattaccagatactcacacgaaca--ttgccattgtctgttgta--cctaatc---------------ttttgttctattattatagGTAAAAGGAGAACCAAATATTTCTTACATCTGTTCAAGGTACTACAGAGCTCCAGAGCTCATATTTGGTGCTACTGAATACACAACAGCGATTGATGTTT

upper sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g19150.4 (Oryza sativa), 3'ss of exon 6
gtatgttcattc---tcaacctgg--aatttctgtt---gtctgtttt------------tcactttctatctgaattctgattgttat-catgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT
||||| ||  |    ||||   |   ||| |    |    | ||||||            |||| |    | |  |  ||   ||  || | | |||  |  |||| | | |   | |||| |||||||||||||| || || || ||||| ||||| ||||| ||||| || ||||| |||||||| || || |||||||| || || |||||| | |
gtatgatcccttgtatcaattagagtaatcttcactcacatatgttttcataaaaaaaggtcacatatcttttataagctatctgaaattcttaaatttaccttgc-cgtgtcc-atagGTGAAAGGGGAACCAAATATTTCATATATCTGTTCTAGATACTACAGAGCCCCAGAACTCATATTTGGGGCTACAGAGTACACGACAGCTATTGATGTGT

upper sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G155836_T01 (Zea mays), 3'ss of exon 7
gtatgttcattctcaacctggaatttctgttgtctgtttttcactttctatctgaattctgattgttat--catgaataaattttgcacttatt-tgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT
                    | ||   | |   |          | |  |   ||||  | ||  || |  | ||  |||||||||    || | |   |||| ||||| ||||||||||| ||||||||||| ||||||||||| ||||| || || || ||||||||||| ||||| ||||| || ||||||||| |||
--------------------gtatggttataagcaagcaactgatattcacaggaatcttcatccttgttgcgtgcctaaattttgtttgtactgttttagGTAAAAGGCGAACCAAACATTTCTTACATCTGTTCTAGGTACTACAGAGCTCCAGAGCTCATATTTGGTGCTACTGAATACACAACAGCCATTGATGTTT

upper sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0005g02100.t01 (Vitis vinifera), 3'ss of exon 7
gtatgttcattctcaacctggaatttctgt-tgtctgtttttcactttctatctgaattctgattgttatcatgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT
||  |||   |  || ||||||||   | | |  || | ||| |  |  |   |||  ||||||  || | || | | | | ||  |   ||||  ||||| |||||||||   ||||||||||||||||| |||||||||||| ||||||||||||||||||||||||||||||| |||||||| ||||||||||| |
gttggttttcttgcatcctggaatgattatgtaactctcttttatatgttgg-tgatatctgatgatt-taattagtta-tcttttaaaaattttgcagGTAAAAGGGGAATTGAACATATCTTACATCTGTTCTAGGTACTATCGAGCACCTGAACTTATATTTGGTGCAACTGAATACACCACAGCCATTGATATCT

upper sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ07923 (Selaginella moellendorffii), 3'ss of exon 7
gtatgttcattctcaacctggaatttctgttgtctgtttttcactttctatctgaattctgattgttatcatgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT
   ||     |  |||   |||   |  |   || |    | | || |  |     | ||| || |  |    ||  ||               |||||| ||||| || || |||||||| || ||||| ||  | || ||  | || || ||||||||||||||||||||||| ||||| || ||||| || || |
--gtgggtgcttacaaataggatccttggaattcagcagctgatttgcgtt-----tcctgcttttcttggcaaaacaa---------------acagGTGAAAGGAGAGCCCAACATATCGTATATCTGTTCCCGTTATTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCT

upper sequence: GLYMA10G01280.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ07216 (Selaginella moellendorffii), 3'ss of exon 7
gtatgttcattctcaacctggaatttctgttgtctgtttttcactttctatctgaattctgattgttatcatgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT
                  |||    |      |  | |  |     |  | | |    ||||||  |    |   |   |||       |    |||||| || || || || |||||||| || ||||| ||  | |||||  | || || ||||||||||||||||||||||| ||||| || ||||| || || |
-----------------gtgggtgcttacaaataggatccttggaattcagcag----ctgatt--tgcgtttcctgcttttcctggcaaaacaacagGTGAAGGGAGAGCCCAACATATCGTATATCTGTTCCCGTTACTACCGTGCTCCGGAACTTATATTTGGTGCAACTGACTACACAACAGCCATCGACATCT

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|193717136|gb|FK652146.1|FK652146
EST:     CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTG                         GTCAAAGGGGAACCAAACATAT
genomic: CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTGgtatgttcat ... tatttgacagGTCAAAGGGGAACCAAACATAT
EST: gi|208333681|gb|GE129554.1|GE129554
EST:     CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTG                         GTCAAAGGG-AACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
genomic: CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTGgtatgttcat ... tatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
EST: gi|208090264|gb|GD885285.1|GD885285
EST:     CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTG                         GTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
genomic: CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTGgtatgttcat ... tatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
EST: gi|207766685|gb|GD738313.1|GD738313
EST:     CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTG                         GTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
genomic: CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTGgtatgttcat ... tatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
EST: gi|151399753|gb|EV269624.1|EV269624
EST:     CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTG                         GTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
genomic: CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTGgtatgttcat ... tatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
EST: gi|193317982|gb|FK284636.1|FK284636
EST:     CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAA-GTCTTG                         GTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA
genomic: CTCACACTCACCAGCTAAAGATTTGTGACTTTGGGAGTGCAAAAGTCTTGgtatgttcat ... tatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttctatctgaattctgattgttatcatgaataaattttgcacttatttgacagGTCAAAGGGGAACCAAACATATCTTACATCTGCTCTAGGTACTATAGAGCACCTGAACTTATATTTGGTGCAACTGAGTACACCACGGCCATTGATATTT
             ttctgat  putative branch site (score: 3)
                                           cttattt  putative PPT
                  attgttatcatgaata  TA-rich tract