Sequence
atgc intronic sequence ATGC exonic sequence...tatttttttgcattgcaattatgcatgtggctggaaaatttgtgatatttataagtattttaatatgataatttgatcaacattctctacaaccgtggagTTTATCCAGAAGAAAGCTTTGTGAAAGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCTTTTCTAGCAAATCTAACCGC
Basic information
species | Glycine max |
transcript | GLYMA15G34480.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G34480.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G25980.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------------tatttttttgcattgcaattatgcatgtggctggaaaatttgtgatatttataagtattttaatat-gataatttgat-caacattctctacaaccgtggagTTTATCCAGAAGAAAGCTTTGTGAAAGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCTTTTCTAGCAAATCTAACCGC
| || || || || | | | | |||| | | || | || ||| | | | | | || || | || || |||| |||||||||||| ||||| ||||||||||| ||||||||||| || || |||||||| | |||||||| |||||||||
gtgagaattggatcggaacttttcaatttcagtgtctggaaatcttcgattctgtgatttttttacagtgaaattgattcgttattggtttctgggtacagTATATTGTATAATCGTGCAGTTTATCCAGAGGAAAGTTTTGTGAAAGTGAAGAAATATGGACTTCCGATGTTGCTTATTGAAGATGAATCCGTCAAATCT--------------------
upper sequence: GLYMA15G34480.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G25980.2 (Arabidopsis thaliana), 3'ss of exon 1
------------------tatttttttgcattgcaattatgcatgtggctggaaaatttgtgatatttataagtattttaatat-gataatttgat-caacattctctacaaccgtggagTTTATCCAGAAGAAAGCTTTGTGAAAGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCTTTTCTAGCAAATCTAACCGC
| || || || || | | | | |||| | | || | || ||| | | | | | || || | || || |||| |||||||||||| ||||| ||||||||||| ||||||||||| || || |||||||| | |||||||| |||||||||
tgagaattggatcggaacttttcaatttcagtgtctggaaatcttcgattctgtgatttttttacagtgaaattgattcgttattggtttctgggtacagTATATTGTATAATCGTGCAGTTTATCCAGAGGAAAGTTTTGTGAAAGTGAAGAAATATGGACTTCCGATGTTGCTTATTGAAGATGAATCCGTCAAATCT--------------------
upper sequence: GLYMA15G34480.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0010g02430.t01 (Vitis vinifera), 3'ss of exon 2
--------------------------tatttttttgcattgcaattatgcatgtggctggaaaatttgtgat---atttataagt--attttaatatgata--atttgatcaacattctctacaaccgtggagTTTATCCAGAAGAAAGCTTTGTGAAAGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCTTTTCTAGCAAATCTAACCGC
||| | | ||| |||| | | | | |||| || | || || ||||| || || | | || ||| ||||| ||||| || ||||||||||| |||||| |||| ||||| |||||||||||||| || ||| |||| || ||||||||||||| |||||
gtatgaacattaaaataaacggattgaattgtagtttatt-taattttctgttgaatttttagatttatgtttgggttgggaaagtgattttgatgggaaagaaaatgttcagTATTCTATACAATCGCGGAGTTTATCCGGAAGAATCTTTTGGAAAAGTGAAGAAATATGGCCTTCCAATGCTGCTTACTCAAGATGAGGGTGTTAAATCG-------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttataagtattttaatatgataatttgatcaacattctctacaaccgtggagTTTATCCAGAAGAAAGCTTTGTGAAAGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCTTTTCTAGCAAATCTAACCGC
ataagtattttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttttttgcattgcaattatgcatgtggctggaaaatttgtgatatttataagtattttaatatgataatttgatcaacattctctacaaccgtggagTTTATCCAGAAGAAAGCTTTGTGAAAGTTAAGAAATATGGCCTCCCCATGTTGCTAACGGAAGATGAGGGTGTCAAATCTTTTCTAGCAAATCTAACCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - cattgca
- - - - - - - - - - -tgcatgt