Sequence
atgc intronic sequence ATGC exonic sequence...tgaaagtgtcattcttttttggagtagcatgggttgacaatcctcatattttactagtacttttaattgaaactgctttggttaatgtcatgcaatccagGTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAGAAGTTGTTGCAAGAAACAATAGAAAAACATCAAAATGAAATTGCAGCCC
Basic information
species | Glycine max |
transcript | GLYMA15G01980.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G01980.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G168654_T01 (Zea mays), 3'ss of exon 15
tgaaagtgtcattcttttttggagtagcatgggttgacaatcctcatattttactagtacttttaattgaaactgctttggttaatgtcatgcaatccagGTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAGAAGTTGTTGCAAGAAACAATAGAAAAACATCAAAATGAAATTGCAGCCC
| || | | ||| | | | ||||| || ||| ||| || || || |||||||| ||||| |||| || ||||||||| | |||||||||||||||| | |||| | |||| ||||||| |
------------------------------------------------------------------gtaggtatgtacttgacaatttatgactaaacagGTTGAGGAGGCTAAGGTTGAGAGCATCAAGAGAGACAAAGCAGCAACTGAGAAGTTGCTTCAAGAAACAATAGAAAGAAATCAGACTGAACTTGCAGCTC
upper sequence: GLYMA15G01980.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G79830.3 (Arabidopsis thaliana), 3'ss of exon 8
tgaaagtgtcattcttttttggagtagcatgggt---tgacaatcctcatattttactagtacttttaa---ttgaaactgctttggttaatgtcatgcaat--ccagGTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAGAAGTTGTTGCAAGAAACAATAGAAAAACATCAAAATGAAATTGCAGCCC
||| |||| || | || || | | | | | | ||| | | | |||| | | || | || || | | | |||| |||| ||||| ||||| || ||||| || || |||||||||||||||||||| ||| || ||||||| || ||||||||||||||| |||| || | | |
-------atcagtcttcttgtaggcaggattaatatctaaataactaaagcatttgcaaagtttgttaagcttcttagcttcattaattt-ttcctttcaattgccagTCGGAAGAAAATAAGGTCGAAAGCATTAAAAGGGACAAGACAGCTACAGAAAAGCTGCTGCAAGAGACCATAGAAAAACATCAAGCTGAACTTACTTCTC
upper sequence: GLYMA15G01980.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv16s0098g00540.t01 (Vitis vinifera), 3'ss of exon 7
tgaaagtgtcattcttttttggagtagcatgggttgacaatcctcatattttact---agtacttttaattgaaactgctttggttaatgtcatgcaa--tccagGTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAGAAGTTGTTGCAAGAAACAATAGAAAAACATCAAAATGAAATTGCAGCCC
||||| ||| |||| | || | || ||| ||| || || ||| | || || | | ||| || | ||||||| ||||||||||| || || ||||| |||||||||||| |||| || ||||| ||| ||||||||||||| |||||||| || || ||||||| |
-----gtgtctgtctaatttgaaatatccacatttctgttccctgttatcttttctggagagcttcttgtttcaatggtatgtgttttggttgaatgacttccagGTGGAAGAGAATAAGGTGGAGAGTATTAAGAGGGACAAGGCAGCAACTGAGAAATTGCTGCAAGAAACAATTGAAAAACACCAGGCAGAGCTTGCAGCTCMapped 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|208321451|gb|GE119532.1|GE119532EST: TTTGAGGAGGAGAAGAAAGGCATGACTACTAAACTTCAG GTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAG
genomic: TTTGAGGAGGAGAAGAAAGGCTTGACTACTAAACTTCAGgtaatagaat ... tgcaatccagGTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattttactagtacttttaattgaaactgctttggttaatgtcatgcaatccagGTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAGAAGTTGTTGCAAGAAACAATAGAAAAACATCAAAATGAAATTGCAGCCC
tacttttaattgaaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaaagtgtcattcttttttggagtagcatgggttgacaatcctcatattttactagtacttttaattgaaactgctttggttaatgtcatgcaatccagGTAGAAGAGAATAAAGTAGAAAGTATCAAGAGGGACAAGACAGCTACAGAGAAGTTGTTGCAAGAAACAATAGAAAAACATCAAAATGAAATTGCAGCCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - -gtcattc
- - - - - - - - - - - - - - -tgggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctttgg