Sequence
atgc intronic sequence ATGC exonic sequence...attaacaattaataaacatttttagcaacataactaaataacacatttcataactgatacaactaacacttgattaatatcctgattttttctttttcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
Basic information
species | Glycine max |
transcript | GLYMA08G02690.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G23920.1 (Arabidopsis thaliana), 3'ss of exon 5
--------------------------------------------------attaacaattaata----aacatttttagcaacataactaaataacacatttcataactgatacaactaacacttgattaatatcctgattttttctttttcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
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gtatgtgacttatgatgtcttatagacaacaaaccatttgacagatttacattacaatcttaaattgtgatatattatggagtatggg-agataatacaacgaattgtgaattatattaacagatattattcatctttgttgtgtttctttcagGTTAGAGATTACATTCATGTCATGGATTTAGCAGATGGACACATAGCTGCTCTGCGTAAGCTAGATGATCTCAAAATCA
upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 5
lower sequence: AT4G10960.1 (Arabidopsis thaliana), 3'ss of exon 5
attaacaattaataaacatttttagcaacataactaaataacacatttcataactgatacaactaacacttgattaatatcctgatttt---ttctttttcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
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-------------------------gtatgtacttgtcttttatgtttt---cataaaacaag-aagaggttttcaacattttgatctcatgttttgttttagGTTCGAGATTACATTCATGTTATTGATTTAGCTGATGGACACATAGCGGCTCTACGTAAGCTAGAAGATTGCAAGATCG
upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g01560.t01 (Vitis vinifera), 3'ss of exon 5
-attaacaattaataaacatttttagcaacataactaaataacacatttcataactgatacaac--taacacttgattaatatcctgattttttctttt--tcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
|| ||| ||| |||| | | ||| | | ||| ||| || | | | | || | ||| || | | || | || |||||| || ||||||||||||||| | ||||||||||||||||| ||||| || |||| || || | | ||||||
ccttggtaat--ataggcattat--actgcattccagttttccacttttgatcaaaggtttgatgtcaatgatgtattgatg-cttacttacctattcacatcagGTACGGGATTACATTCATGTTGTGGATTTAGCAGATGGGCACATTGCAGCCTTGCACAAGCTACTCAACTCAGAAATAG
upper sequence: GLYMA08G02690.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g01580.t01 (Vitis vinifera), 3'ss of exon 5
-attaacaattaataaacatttttagcaacataactaaataacacatttcataactgatacaactaacacttgattaatatcctgattttttctttttcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
||| || | | | | ||| || | | | | | || | | || | | || || | | ||||| |||||||| ||||||||||| |||||| ||||||| ||||||||||| ||||| || ||| | || || | | ||||||
gcttaggtgatataggaattatattgcattctagttttctg-cttgtgacctaggttttgatgtcaataatgtgttgatgtttacctattttcactttcagGTCCGTGATTACATCCATGTTGTTGATTTGGCAGATGGGCACATTGCAGCTTTGTGCAAGCTATTCAACTCAGAAATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcataactgatacaactaacacttgattaatatcctgattttttctttttcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
tatcctgattttttct CT-rich tract
tgattttttcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attaacaattaataaacatttttagcaacataactaaataacacatttcataactgatacaactaacacttgattaatatcctgattttttctttttcagGTTCGTGATTACATTCATGTTCTTGATTTAGCAGATGGGCATATTGCTGCGTTGCGTAAACTGGATGATCCTAAAATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC