Sequence
atgc intronic sequence ATGC exonic sequencegtaatggtgttgttgcttttatgttcttgattttgaattagttattttttgcaaacattcattgataaccaataataccttgttctttgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
Basic information
species | Glycine max |
transcript | GLYMA16G08320.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 3'ss of exon 5
gtaatggtgttgttgcttttatgttcttgattttgaa-ttagt-tattttttgcaaacattcattgataaccaataataccttgttctt--tgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
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gtgacagcatcagtctatgcatgtttgttgttgagcacttaatgtattttctactaatattt-ttaacagaagatcctttggttctactaattatttaccagACCATGAACAAAGTCTTTGAGCATGCTGGAGATCTTGTCAACATCCGAGTTGCACATAATTTAATGCGACTTATTGCTGAAGGCTTTGGAGAGGAGGATG
upper sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G146697_T03 (Zea mays), 3'ss of exon 5
gtaatggtgttgttgcttttatgttcttgattttgaattagttattttttgcaaacattcattgataacc-aataataccttgttctttgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
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gtaatcacatgagtatt-----gtccaacatattg--tcaagcatcctttgt---tgcttcttgagagctgaactctttcttcctctattttcttacagACCATGAACAAAGTCTTTGAGCATGCCGGAGATCTTGTCAACATCAGAGTGGCGCACAATCTGATGCGGCTAATTGCTGAAGGCTTTGGAGAGGAGGATG
upper sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 4
gtaatggtgttgttgcttttatgttcttgattttgaattagttattttttgcaaacattcattgataacc-aataataccttgttctttgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
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-----gttatcacatgagtattgtcctaaatattg--tcatgcatcttttgt---tgcctcttgagagctgaaccttttcttcctctattctcttacagACCATGAACAGAGTTTTTGAGCATGCTGGAGATCTTGTCAACATCAGAGTGGCACACAATTTGATGCGGCTAATTGCTGAAGGCTTTGGAGATGAGGACG
upper sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaatggtgttgttgcttttatgttcttgattttgaattagttattttttgcaaacattcattgataaccaataataccttgttctttgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
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gtagcaagccaacctccattgtaactgtggcctgacaataaacatatat----actctttgtttctgacagaagtttaactgtttct--gtactgcagATCATGAATAAAGTCTTCGAGCATGCAGGAGATCTGGTAAATATTAAAGTGGCACATAATCTGATGCGTTTGATTGCTGAAGGATTTGGAGAGGACGATG
upper sequence: GLYMA16G08320.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0087g00690.t01 (Vitis vinifera), 3'ss of exon 5
gtaatggtgttgttgc-ttttatgttcttgattttgaattagttattt-tttgcaaacattcattgataaccaataataccttgttctt-tgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
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gtaattatattgttgccttttccattccagattgtatatgaacgggttgcttgtgtttttttaccttttaatgcttagattttctccttatgtgtttacagACCATGAATAAAGTCTTTGAGCATGCTGGAGATTTGGTCAATATTAAGGTGGCTGATAATTTGATGCGGTTGATTGCGGAGGGGTTCGGAGAGGACGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttttgcaaacattcattgataaccaataataccttgttctttgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
ttctttg CT-rich tract
tttgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatggtgttgttgcttttatgttcttgattttgaattagttattttttgcaaacattcattgataaccaataataccttgttctttgattttgcagACCATGAATAAAGTCTTTGAGCATGCTGGAGATCTTGTGAATATTAAGGTGGCACATAATTTAATGCGATTGATTGGTGAAGGATTTGAAGAGGATGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG