Sequence
atgc intronic sequence ATGC exonic sequence...gagtattctctgaattgttacattctataaatttaatgtattggaatgccaaagacagtgattggaacctatcttaattgatgtattttcaattcaacagTCGTTGTACTTGTATTGCTTGGGTTCCTGGAGGCGATGGTTCTTTCGTTGTTTCTCATGCTGATGGGAATTTGTACGTATATGAAAAGGCAA
Basic information
species | Glycine max |
transcript | GLYMA19G36480.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36480.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G53390.1 (Arabidopsis thaliana), 3'ss of exon 4
gagtattctctgaattgttacattctataaatttaatgtattggaatgccaaagacagtgattggaacctatcttaattgatgtattttcaatt-caacagTCGTTGTACTTGTATTGCTTGGGTTCCTGGAGGCGATGGTTCTTTCGTTGTTTCTCATGCTGATGGGAATTTGTACGTATATGAAAAGGCAA
||| | | || | | | || | ||| ||| | || || | | | || | | || | || || ||||||||||| ||| ||||| ||||||| |||||||| ||||| | || || ||| ||||||| ||||| |||||||| || ||||| |||
-agttcgtttttaagtaggttaagttgaaacatgaatcaattttggcgtcatgactcttgccttctctaagtttaaaataaagtttgttgctttgtaacagTCGTTGCACTAGTATTTCTTGGGTGCCTGGAGGTGATGGAGCATTTGTCGTTGCTCATGCCGATGGCAATTTGTATGTGTATGAGAAG----
upper sequence: GLYMA19G36480.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 4
------gagtattctctgaattgttacattctataaatttaatgtattggaatgccaaagacagtgattggaacctatcttaattgatgtattttcaattcaacagTCGTTGTACTTGTATTGCTTGGGTTCCTGGAGGCGATGGTTCTTTCGTTGTTTCTCATGCTGATGGGAATTTGTACGTATATGAAAAGGCAA
|| | |||| | | ||| || ||| || ||| | | | | |||| || | || || ||||| || |||||| |||| |||||||| |||||||| ||||| || || |||| | ||||||| ||||| ||| |||||||||||||||||
ataactgaaatctggctgagat-tccttttccgagaacaaaattactttatatgttttttatccacttcaagaataagattaa-----gtttgttgcttttaacagCCGCTGTACTAGTATAGCTTGGGTGCCTGGAGGTGATGGATCCTTTGTTGCTGCTCATGCCGATGGAAATCTGTACGTATATGAAAAG----
upper sequence: GLYMA19G36480.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 4
gagtattctctgaattgttacattctataaatttaatgta--ttggaatgccaaagacagtgattggaacctatcttaattga-tgtattttcaattcaacagTCGTTGTACTTGTATTGCTTGGGTTCCTGGAGGCGATGGTTCTTTCGTTGTTTCTCATGCTGATGGGAATTTGTACGTATATGAAAAGGCAA
| | | | | | || | | | || ||| | | | | | | | ||| | | | || | | | | | | || || || || ||||||||| | ||||| ||||| |||| || |||||| ||||||||||| ||||||||||||| ||||||||||| ||||| |||
--tctgaataaggactttcagatgcattcagttccatgcaagtagaagtttaatatttagttagtagg-tttaaccaagtaaactacttcttgtttttaatagCCGTTGTACTAGCATTGCATGGGTCCCTGATGGTGATGGTGCTTTCGTTGTTGCTCATGCTGATGGAAATTTGTACGTGTATGAGAAG---- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgccaaagacagtgattggaacctatcttaattgatgtattttcaattcaacagTCGTTGTACTTGTATTGCTTGGGTTCCTGGAGGCGATGGTTCTTTCGTTGTTTCTCATGCTGATGGGAATTTGTACGTATATGAAAAGGCAA
ttaattgatgtatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtattctctgaattgttacattctataaatttaatgtattggaatgccaaagacagtgattggaacctatcttaattgatgtattttcaattcaacagTCGTTGTACTTGTATTGCTTGGGTTCCTGGAGGCGATGGTTCTTTCGTTGTTTCTCATGCTGATGGGAATTTGTACGTATATGAAAAGGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - -ctctgaa
- - - - - - - - - tacattc
- - - - - - - - - - - - - - - - - - - - - -gaatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgta