Sequence
atgc intronic sequence ATGC exonic sequencegtcagtatgatttctttgttgagttttttgtaattgatgcttttgatgtaatattgtttgtgtcactgttttgattgtctagGTGATAAAGAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCCACCGTTTTCGAGATGGCTACTACAAAACCTCCTTGGAGCCAAT
Basic information
species | Glycine max |
transcript | GLYMA11G02520.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g44642.1 (Oryza sativa), 3'ss of exon 8
-----------------------------------gtcagtatgatttctttgttgagttttttgtaattgatgcttttgatgt-aatattgtttgtgtcac---tgttttgattgtctagGTGATAAAGAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCCACCGTTTTCGAGATGGCTACTACAAAACCTCCTTGGAGCCAAT
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gtaatgaaaatcctacattcttctacacttctctagttatt-tgatgaatttat-gcctatcttctctccgctGTTATAAAAATCAACCTTGCTTCTCTCACACATGTAATAACTATGCAGGTTATAAAAAATTCTAATGGATGTAATCTTGCTGTTGACATATGGAGCTTAGGATGCACGGTTTTAGAGATGGCTACCTCAAAACCACCATGGAGCCAAT
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 7
gtcagtatgatttctttgttgagttttttgtaattgatgcttttgatgtaatattg-tttgtgtcactgttttgattgtctagGTGATAAAGAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCCACCGTTTTCGAGATGGCTACTACAAAACCTCCTTGGAGCCAAT
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gtcagtatg-ctgctacaacctgtctgtttcaatgttgacaggcgttatgctgatgctttattatcttgcttggatt--tcagGTGATAAAGAATTCAAATGGCAGTAACCTTGCGGTCGACATATGGAGTCTTGGATGTACTGTTTTAGAAATGGCTACAACGAAACCTCCATGGAGCCAGT
upper sequence: GLYMA11G02520.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 9
gtcagtatgatttct-ttgttgagttttttgtaattgatgcttttgatgtaatattgtt---tgtgtcactgttttgattgtctagGTGATAAAGAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCCACCGTTTTCGAGATGGCTACTACAAAACCTCCTTGGAGCCAAT
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gtcagcctggttttcatttttgtactgttggtcactgttcttgacaatcctttctagtaacatatttgattgaatttatcattcagGTCATAAAGAACTCAAATGGCTGTAATCTTGCAGTCGATTTATGGAGTCTTGGGTGCACAGTTTTGGAGATGGCTACAACAAAACCACCTTGGAGCCAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtaattgatgcttttgatgtaatattgtttgtgtcactgttttgattgtctagGTGATAAAGAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCCACCGTTTTCGAGATGGCTACTACAAAACCTCCTTGGAGCCAAT
ttttgat putative branch site (score: 4)
ttttgatgtaatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtatgatttctttgttgagttttttgtaattgatgcttttgatgtaatattgtttgtgtcactgttttgattgtctagGTGATAAAGAATTCAAATGGTTGTAATCTTGCTGTTGATATATGGAGCCTTGGCTCCACCGTTTTCGAGATGGCTACTACAAAACCTCCTTGGAGCCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG