Sequence
atgc intronic sequence ATGC exonic sequence...aatagaacttgttagtctccattcctgacatcctccctcaccattttatttttgaatagagttttattattcttaattatttttctttttttgtgtgtagGAAGCAGTTCGTAGGGCTACCATAGCCCAGAAATTTATACCAGTATTCATGGGTAGTGCTTTCAAAAATAAG
Basic information
species | Glycine max |
transcript | GLYMA11G16460.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 4
aatagaacttgttagtctccattc-ctgacatcctccctcaccattttatttttgaatagagttttattattcttaattat----ttttctttttttgtgtgtagGAAGCAGTTCGTAGGGCTACCATAGCCCAGAAATTTATACCAGTATTCATGGGTAGTGCTTTCAAAAATAAG
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----ttcattcctagcgtccaagaattgccgtgtttgtatattattactctttt-acttgcattttgttactgtaacttttgtggtctgctgtatatatgtgcagGAAGCTATTCGTAGAGCTACCATAGCACAAAAGTTTGTTCCTGTATTTATGGGTAGTGCATTCAAAAACAAG
upper sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 4
aatagaacttgttagtctccattcctgacatcctccctcaccattttatttttgaatagagttt-----tattattcttaattatt---tttctttttttgtgtgtagGAAGCAGTTCGTAGGGCTACCATAGCCCAGAAATTTATACCAGTATTCATGGGTAGTGCTTTCAAAAATAAG
||||| || | || ||| || | |||| |||||| || | ||| | | || | || | ||| |||| | || |||||| ||| | || |||||||| | || |||||||||||||| || |||||||| ||||| |||||||| |||
------tactgttaatc-cttttgttga-atgtcaaaaaaaaatttaatttttagttatattttattcttgtagttttgaagttcagagtttattttctcttgagtagGAGGCAATCCGCAGGGCTACAGTTGCACAGAAATTTATACCGGTCTTCATGGGCAGTGCATTCAAAAACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttttgaatagagttttattattcttaattatttttctttttttgtgtgtagGAAGCAGTTCGTAGGGCTACCATAGCCCAGAAATTTATACCAGTATTCATGGGTAGTGCTTTCAAAAATAAG
tcttaat putative branch site (score: 3)
ttcttaattatttttc CT-rich tract
aatagagttttattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatagaacttgttagtctccattcctgacatcctccctcaccattttatttttgaatagagttttattattcttaattatttttctttttttgtgtgtagGAAGCAGTTCGTAGGGCTACCATAGCCCAGAAATTTATACCAGTATTCATGGGTAGTGCTTTCAAAAATAAG
- - - - - - - - - ccattcc
- - - - - - - - - - - - -tgacatc
- - - - - - - - - - - - - - - - ctccctc