Sequence
atgc intronic sequence ATGC exonic sequence...tcctgaaattttcgctaaattatggtcaggatatccacttgatcatttacatatgatctaattctcttttctaaccttatctttgttttgtcttttgcagCTGGGACATAATTGCAGAGAGACTGGGCTTCATGTTGGTCTTTGGAGATTTAGTGTGGATTCCTTTCTCTTTCAGCATACAG
Basic information
species | Glycine max |
transcript | GLYMA13G21450.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G21450.2 (Glycine max), 3'ss of exon 8
lower sequence: AT3G52940.1 (Arabidopsis thaliana), 3'ss of exon 8
tcctgaaattttcgctaaattatggtcaggatatccacttga-tcatttacatatgatctaattctcttttctaaccttatctttgttttgtcttttgcagCTGGGACATAATTGCAGAGAGACTGGGCTTCATGTTGGTCTTTGGAGATTTAGTGTGGATTCCTTTCTCTTTCAGCATACAG
| || || | || | |||| | || ||| | | | | |||| | ||| | || || || || |||| ||| ||| ||||||||||||||||||||||| ||||||||| | || ||||||||| | |||||||||||||| |||| ||||| |||
----gtaagttc----atggcgtgttaaggaaacacatttgtcttaccaaaaaatgacc--atttgcattattacatctactttgattttactcttttcagGTGGGACATAATTGCAGAGAGACTAGGCTTCATGCTAGTGTTTGGAGATCTCCTGTGGATTCCTTTCACTTTTAGCATTCAG
upper sequence: GLYMA13G21450.2 (Glycine max), 3'ss of exon 8
lower sequence: AT3G52940.2 (Arabidopsis thaliana), 3'ss of exon 8
tcctgaaattttcgctaaattatggtcaggatatccacttga-tcatttacatatgatctaattctcttttctaaccttatctttgttttgtcttttgcagCTGGGACATAATTGCAGAGAGACTGGGCTTCATGTTGGTCTTTGGAGATTTAGTGTGGATTCCTTTCTCTTTCAGCATACAG----
| || || | || | |||| | || ||| | | | | |||| | ||| | || || || || |||| ||| ||| ||||||||||||||||||||||| ||||||||| | || ||||||||| | |||||||||||||| |||| ||||| |||
----gtaagttc----atggcgtgttaaggaaacacatttgtcttaccaaaaaatgacc--atttgcattattacatctactttgattttactcttttcagGTGGGACATAATTGCAGAGAGACTAGGCTTCATGCTAGTGTTTGGAGATCTCCTGTGGATTCCTTTCACTTTTAGCATTCAGGCAT
upper sequence: GLYMA13G21450.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0007g03930.t01 (Vitis vinifera), 3'ss of exon 8
tcctgaaattttcgctaaattatggtcag-gatatccacttgatcatttacatatgatctaattctcttttctaaccttatctt-tgtt-ttgtcttttgcagCTGGGACATAATTGCAGAGAGACTGGGCTTCATGTTGGTCTTTGGAGATTTAGTGTGGATTCCTTTCTCTTTCAGCATACAG
|| | || || | ||| ||| | | ||| |||||| ||||| | ||| || | ||| || |||||| || ||||| || ||||| |||||| |||||||||||||||| ||||| ||| |||||||||| ||||| |||| ||||| |||
--cttgcttcttgtctttctatcagtcgataatagtaatgttgtcacactt-tatgatttaatttacaaatctgactcagctgtatgtggttatcttttatagATGGGATATCATTGCGGAGAGATTGGGCTTCATGTTGGTGTTTGGGGATCTAGTGTGGATCCCTTTTACTTTTAGCATCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttacatatgatctaattctcttttctaaccttatctttgttttgtcttttgcagCTGGGACATAATTGCAGAGAGACTGGGCTTCATGTTGGTCTTTGGAGATTTAGTGTGGATTCCTTTCTCTTTCAGCATACAG
ttctaac putative branch site (score: 1)
ttctcttttctaacct CT-rich tract
atctaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctgaaattttcgctaaattatggtcaggatatccacttgatcatttacatatgatctaattctcttttctaaccttatctttgttttgtcttttgcagCTGGGACATAATTGCAGAGAGACTGGGCTTCATGTTGGTCTTTGGAGATTTAGTGTGGATTCCTTTCTCTTTCAGCATACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT