Sequence
atgc intronic sequence ATGC exonic sequence...gatgtatttatgtcatgtatgcataggagggaaagtattgtaatctgccatcataaatttttggtactaagttttgattatgctaccttattctttgcagGCCTGAATCATTAGGTATAGTTGTTGGTATTGTGTTCTTGGTTGTGGCAATCTTGTTTCAGTATTTTAACTTCACATCAGATTCAAAT
Basic information
species | Glycine max |
transcript | GLYMA10G16320.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G16320.1 (Glycine max), 3'ss of exon 1
lower sequence: AT2G41490.1 (Arabidopsis thaliana), 3'ss of exon 1
gatgtatttatgtcatgtatgcataggagggaaagtattgtaatctgccatcataaatttttggtactaagttttgattatgctaccttattctttgcagGCCTGAATCATTAGGTATAGTTGTTGGTATTGTGTTCTTGGTTGTGGCAATCTTGTTTCAGTATTTTAACTTCACATCAGATTCAAAT
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------------------gtgagtttttatcaatctctgattttccaaagattaagattagtttgattaaaatttcttcat----cctctttgttttcagGCCAGAGTCATTGGGTATTGTTGTTGGTATTGTCTTTTTGATCGTGGCGATAATATTTCAGTATTTTAACTTCACTGAAGATTCTAAT
upper sequence: GLYMA10G16320.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g05920.t01 (Vitis vinifera), 3'ss of exon 1
---gatgtatttatgtcatg-tatgcataggagggaaagtattgtaatctgccatcataaatttttggtactaagttttgattatgctaccttattctttgcagGCCTGAATCATTAGGTATAGTTGTTGGTATTGTGTTCTTGGTTGTGGCAATCTTGTTTCAGTATTTTAACTTCACATCAGATTCAAAT
| | | | || |||| || | | | | || || ||| || | | | || ||| | || | |||||||||||||||| | ||||| |||||||| ||||| |||||||| |||||||||| |||||||||||||| ||||||||||||||||||
aaatagaagctaagagcttgatatgtatctaatatttgcctcctttcttttttat-atcaatgctttatcttgaattactggtattat---ttctgtcttgcagGCCTGAATCACTGGGTATTGTTGTTGGGATTGTCTTCTTGGTCTTGGCAATCTTATTTCAGTATTTTAATTTCACATCAGATTCAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgccatcataaatttttggtactaagttttgattatgctaccttattctttgcagGCCTGAATCATTAGGTATAGTTGTTGGTATTGTGTTCTTGGTTGTGGCAATCTTGTTTCAGTATTTTAACTTCACATCAGATTCAAAT
ttttgat putative branch site (score: 4)
ctaccttattcttt putative PPT
ataaatttttggta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatgtatttatgtcatgtatgcataggagggaaagtattgtaatctgccatcataaatttttggtactaagttttgattatgctaccttattctttgcagGCCTGAATCATTAGGTATAGTTGTTGGTATTGTGTTCTTGGTTGTGGCAATCTTGTTTCAGTATTTTAACTTCACATCAGATTCAAAT
- - - - - - - - gtatgca
- - - - - - - - - - - - -ggaggga
- - - - - - - - - - - - - - - - - - - - - - -tgccatc