Sequence
atgc intronic sequence ATGC exonic sequencegtgagttccctccattttcaaccttttgccactcctctatattatatttgtatgatcattatcctttttgtgcttttgagaagttttgttattttttcttcttttatttattttaattatcacaatagATATAGGCAAAAGCACAAGAGAGTTAACATTAGGGCAGTGAAGCATTGGTGTAGACAAATCCTGAGAGGGCTTCTCTATCTTCATAGCCGTGACCCACCT
Basic information
species | Glycine max |
transcript | GLYMA19G43210.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G43210.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G04910.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagttccctccattttcaaccttttgccactcctctatattatatttgtatgatcattatcctttttgtgcttttgagaagttttgttattttttcttcttttatttattttaattatcacaatagATATAGGCAAAAGCACAAGAGAGTTAACATTAGGGCAGTGAAGCATTGGTGTAGACAAATCCTGAGAGGGCTTCTCTATCTTCATAGCCGTGACCCACCT
||| ||| | | | | ||||| | ||| || ||| | | | | || | |||| | |||||||| | | || |||||||| ||||| || || ||||||||||||| ||||||||| ||||||| | | |||||||| |||| ||| || |||
-------------------------------------------------gtaagattctc-ttgtaaacatacttttctgtcgttggttttagtttatctttaacgataacttcatttatggatacagATATAGACTCAGACATAAGAGAGTGAACATAAGAGCTATGAAGCATTGGTGCAGACAAATCTTGAGAGGCTTACATTATCTTCACAGCCATGATCCTCCT
upper sequence: GLYMA19G43210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0030g01660.t01 (Vitis vinifera), 3'ss of exon 3
gtgagttccctccattttcaaccttttgccactcctctatattatatttgtatgatcattatcctttttgtgcttttgagaagttttgttattttttcttcttttatttattttaattatcacaatagATATAGGCAAAAGCACAAGAGAGTTAACATTAGGGCAGTGAAGCATTGGTGTAGACAAATCCTGAGAGGGCTTCTCTATCTTCATAGCCGTGACCCACCT
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------------------------gtaagtatcctcgaattttctggtcattttagtatgtgggtcgttgagatttttaccggtttaaatgggttttcttgcttt-tctatgtt--tgatcatgatagGTATAGGCAAAAGCACAAGAGAGTTAACATTAGAGCAGTGAAGCATTGGTGCAGACAGATCTTGAGAGGGCTTCTCTACCTCCATAGCCATGACCCACCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgagaagttttgttattttttcttcttttatttattttaattatcacaatagATATAGGCAAAAGCACAAGAGAGTTAACATTAGGGCAGTGAAGCATTGGTGTAGACAAATCCTGAGAGGGCTTCTCTATCTTCATAGCCGTGACCCACCT
ttttaat putative branch site (score: 3)
aagttttgttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttccctccattttcaaccttttgccactcctctatattatatttgtatgatcattatcctttttgtgcttttgagaagttttgttattttttcttcttttatttattttaattatcacaatagATATAGGCAAAAGCACAAGAGAGTTAACATTAGGGCAGTGAAGCATTGGTGTAGACAAATCCTGAGAGGGCTTCTCTATCTTCATAGCCGTGACCCACCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG