Sequence
atgc intronic sequence ATGC exonic sequence...ttgtccatttaattatcaaatactgtaatactgaataaactttattattttattttcaaaaaataaatgcaatgctcattgcttttggacatgtctatagGACCCTGCATTCCAGAGGCTGATATTCATAACCATGCTTGCCTGGGAAAATCCTTACACTAATGACCTTTCCAGCAATTCAGAGAAGGCTTCTTTACAG
Basic information
species | Glycine max |
transcript | GLYMA08G19800.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19800.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G71240.1 (Arabidopsis thaliana), 3'ss of exon 3
ttgtccatttaattatcaaatactgtaatactgaataaactttattattttattttcaaaaaataaatgcaatgctcattgcttttgga------------catgtct--atagGACCCTGCATTCCAGAGGCTGATATTCATAACCATGCTTGCCTGGGAAAATCCTTACACTAATGACCTTTCCAGCAATTCAGAGAAGGCTTCTTTACAG-------
|| | |||| | ||||| || | ||||| ||| | | | || | |||| ||| || || ||| |||||| ||||||||||||||||| |||||||| || ||||| || |||| ||||| || ||| || || ||| || || | | | | |
-------------------gtatctggaaactggg-atgctttacacttattgtttcagaaatggagagtattgtttattggtttctgaagcattgaaaattatctcttcatagGAACCTGCATTCCAGAGGCTTATATTCATCACAATGCTCGCGTGGGCGAATCCATATTGTAAAGAA------AGAAATGCACGCAATGATGCCTCAGGAAAACCTT
upper sequence: GLYMA08G19800.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv12s0034g01220.t01 (Vitis vinifera), 3'ss of exon 3
ttgtccatttaattatcaaatactgtaatactgaataaactttattattttattttcaaaaaataaatgcaatgctcattgcttttggac--------atgtctatagGACCCTGCATTCCAGAGGCTGATATTCATAACCATGCTTGCCTGGGAAAATCCTTAC------ACTAATGACCT---TTCCAGCAATTCAGAGAAGGCTTCTTTACAG
|| || || | | ||| | || || ||| || |||| | | | || | | || |||||| || || |||| |||||||||||||| ||||| ||||| || ||||| || ||||| ||||||||| | ||||| | | | || |||||| ||||
------gatttatcataatcttttgtgagacctg-taggacttactaaattatctg-attggccagttgggtttttttttttttttgggataaatttggtgcttacagGAACCTGCATTCCAGAGACTGATTTTCATTACAATGCTCGCATGGGAGAATCCTTACTATGAAGCAAATGATTCAAATGCTATTGGTTTAGAGAAAGCTT-------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttattttcaaaaaataaatgcaatgctcattgcttttggacatgtctatagGACCCTGCATTCCAGAGGCTGATATTCATAACCATGCTTGCCTGGGAAAATCCTTACACTAATGACCTTTCCAGCAATTCAGAGAAGGCTTCTTTACAG
tattttcaaaaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtccatttaattatcaaatactgtaatactgaataaactttattattttattttcaaaaaataaatgcaatgctcattgcttttggacatgtctatagGACCCTGCATTCCAGAGGCTGATATTCATAACCATGCTTGCCTGGGAAAATCCTTACACTAATGACCTTTCCAGCAATTCAGAGAAGGCTTCTTTACAG
- - ccattta
- - - - - - - - - - - - - - - - gaataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttttg