Sequence
atgc intronic sequence ATGC exonic sequencegtaagggttctttctgattctctttcattattggttgtagatgctaaaagagaatgttgtatattggttgtagatgctaaaagagaatgttgtataagtggtttcattctttgcagTTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATT
Basic information
species | Glycine max |
transcript | GLYMA19G35800.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G35800.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g62080.1 (Oryza sativa), 3'ss of exon 6
gtaagggttctttctgattctctttcattattggttgtagatgctaaaagagaatgttgtatattggttgtagatgctaaaagagaatgttgtataagtggtttcattctttgcagTTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATT
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--------------------------------gtaagcaaactactttcgtcattgctaagtcttgactctttattgagttgatggat-ttgcatgaatggttctatgcct-gcagCTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATATGTATA
upper sequence: GLYMA19G35800.1 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G386991_T01 (Zea mays), 3'ss of exon 4
gtaagggttctttctgattctctttcattattggttgtagatgctaaaagagaatgttgtatattggttgtagatgctaaaagagaatgttgtataagtggtttcattctttgcagTTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATT
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---------------------------------gtaagaaatttacctctcttgtttcacttattgatccttttgttgagttgatggatttgcatcgatggttctatgcct-gcagTTGTGTGCAAATACGGAACTGGTTTGACTATCGTAATCATATTTGTATA
upper sequence: GLYMA19G35800.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G53570.4 (Arabidopsis thaliana), 3'ss of exon 6
gtaagggttctttctgattctctttcattattggttgtagatgctaaaagagaatgttgtatattggttgtagatgctaaaagagaatgttgtataagtggtttcattctttgcagTTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATT
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gtaagaatatttc----tttcctcttactatttctt-----cgcta---------gttttaattttattacatttg---------------gtataagcttttcaattccttgcagTTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATTTGTATT
upper sequence: GLYMA19G35800.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0040g02640.t01 (Vitis vinifera), 3'ss of exon 4
gtaagggttctttctgattctctttcattattggttgtagatgctaaaagagaatgttgtata-ttggttgtagatgctaaaagagaatgttg-tataagtggtttcattctttgcagTTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATT
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--------------------------------gtacggactctctgtctctttgtgttctgttcttggttgtagaagtttgaagtgttttttggtataagtcgtttcattctttgcagTTGTGTGCAAATACGGAATTGGTTTGACTATCGTAATCATATTTGTATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattggttgtagatgctaaaagagaatgttgtataagtggtttcattctttgcagTTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATT
tgctaaa putative branch site (score: 2)
tttcattcttt putative PPT
ttgtataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagggttctttctgattctctttcattattggttgtagatgctaaaagagaatgttgtatattggttgtagatgctaaaagagaatgttgtataagtggtttcattctttgcagTTGTGTGCAGATACGGAATTGGTTTGACTATCTTAATCATATTTGTATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT