Sequence
atgc intronic sequence ATGC exonic sequence...acatggttcttgaaaacataataaataaataaaacgaaatactttgatatattatgttgttctcgacattgtttctgattttttttttggttggatacagATAACCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAG
Basic information
species | Glycine max |
transcript | GLYMA05G32340.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G18680.1 (Arabidopsis thaliana), 3'ss of exon 2
acatggttcttgaaaacataataaataaataaaacgaaatactttgatatattatgttgttctcgacattgtt--tctgattttttttttggttggatacagATAACCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAG
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-----gtttattgtgataccaaaagaaccctccttgttttgctttc-tttgttctctgtttccttacttcagaagtctcatccagtttcccgttaatt--agGTTACTATGGCGATTGCAAGGGAAGTTGCAGCAGTGACTCGACTTGGCATTGAG
upper sequence: GLYMA05G32340.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv04s0044g00890.t01 (Vitis vinifera), 3'ss of exon 3
acatggttcttgaaaacataataaataaataaaacgaaatactttgatatattatgttgttctcgacattgtttctg-attttttttttggttggatacagATAACCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAG
||| || || | | ||| | | ||| || | || || | |||| || | ||| || | ||||||||| || ||||| ||||||||||| || ||| | |||||||| |||||||| |||
--------gttggaatatgaacataatgatatgtttatgctccgaagtatctttcttcacccttgatagtgttgaaatatcatatttatgctatgatacagATTACGATGGCAATTGCAAGGGAAGTTGCATCTGTGACTCGGCTTGGCATAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatatattatgttgttctcgacattgtttctgattttttttttggttggatacagATAACCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAG
ttctgat putative branch site (score: 3)
ttttttttttggtt CT-rich tract
attgtttctgattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acatggttcttgaaaacataataaataaataaaacgaaatactttgatatattatgttgttctcgacattgtttctgattttttttttggttggatacagATAACCATGGCCATTGCAAGGGAGGTGGCAGCAGTGACTCGCCTTGGCATTGAG
- - -gttcttg
- - - - - - aaaacata
- - - - - - - - - - - aaataaa
- - - - - - - - - - - - - - - - - -gaaatac
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtt