Sequence
atgc intronic sequence ATGC exonic sequence...gtagccagtcattgttgcatttttatttggtcatggtattttcctgtttttatattgtatttgtttgtcaactgaatgtttcttccaatgtaatttctagGTTTCATCTTTACAAGGAGAACAAAGATACACATGAAGCCTTGGGGGTTATTGGAAATATGCTCAGCATCCAG
Basic information
species | Glycine max |
transcript | GLYMA19G43270.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G43270.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g56620.1 (Oryza sativa), 3'ss of exon 3
----------------------gtagccagtcattgttgcatttttatttggtcatggtattttcctgtttttatattgtatttgtttgtcaactgaatgtttcttccaatgtaatttctagGTTTCATCTTTACAAGGAGAACAAAGATACACATGAAGCCTTGGGGGTTATTGGAAATATGCTCAGCATCCAG
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gttatgtcatctgttcagtttcatgcctaactactattgtgcccgatcatctttattctgttcgtgtaagaatgcaaagcactgcaccgttgacttacagtatgt---aattcacataccagGTTTCATCTTTACAAGGAGAACAAGGACACCCAAGAGGCACTAGGAAAGATAGGCAAGATGCTAGGGCTTCAG
upper sequence: GLYMA19G43270.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G04820.1 (Arabidopsis thaliana), 3'ss of exon 4
gtagccagt-cattgttgcatttttatt-tggtcatggtattttcctgtttttatattgtatttgtttgtcaactgaatgtttcttccaatgtaatttctagGTTTCATCTTTACAAGGAGAACAAAGATACACATGAAGCCTTGGGGGTTATTGGAAATATGCTCAGCATCCAG
|| | ||| | | | || | | || |||| ||| | || | | | ||||| ||| | | | | | | || |||||| ||||||||||||||||||||||||||||| || |||||||| | |||||||| ||||| || | |||
-tattttatacatcataatctctgtagtgcttttattttattaatgcatttggacgttcaacctatgtgtcatttgatt-tatgagtcgtttaagttaatagGTTCCATCTTTACAAGGAGAACAAAGATACACAAGAGGCCTTGGGATTGATTGGAAAGATGCTAGGCGTTCAG
upper sequence: GLYMA19G43270.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0030g01840.t01 (Vitis vinifera), 3'ss of exon 4
gtagccagtcattgttgcatttttatttggtcatggtattttcctgtttttatattgtatttgtttgtcaactgaatgtttcttccaatgtaa-tttctagGTTTCATCTTTACAAGGAGAACAAAGATACACATGAAGCCTTGGGGGTTATTGGAAATATGCTCAGCATCCAG
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-gcttctgaaaacatttttttttcaacttccattgatctttcattgcatcaactttgcacttgaacactatctgattagtactgtcagtataaattttcagGTTTCATCTTTACAAGGAGAACAAGGATACCCAGGAGGCCATAGGATTGATTGGAAAGATGCTGGGCATCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttttatattgtatttgtttgtcaactgaatgtttcttccaatgtaatttctagGTTTCATCTTTACAAGGAGAACAAAGATACACATGAAGCCTTGGGGGTTATTGGAAATATGCTCAGCATCCAG
tttct CT-rich tract
tatattgtatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagccagtcattgttgcatttttatttggtcatggtattttcctgtttttatattgtatttgtttgtcaactgaatgtttcttccaatgtaatttctagGTTTCATCTTTACAAGGAGAACAAAGATACACATGAAGCCTTGGGGGTTATTGGAAATATGCTCAGCATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - ccagtca
- - - - - - - -tgcattt
- - - - - - - - - - - - - - -gtcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caactga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcttcc