Sequence
atgc intronic sequence ATGC exonic sequence...gtgtgcatgttcacacacattattagcttagtagatgtcatttatcgaaaaccggagtaataatttctgtagtgctacttaattttatatgcaatggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
Basic information
species | Glycine max |
transcript | GLYMA13G17950.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G044819_T02 (Zea mays), 3'ss of exon 4
gtgtgcatgttcacacacattattagcttagtagatgtcatttatcgaaaaccggagtaataatttctgtagtgcta-cttaattttatatgcaatggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
||||| || | || | | ||| | || | || | || || | ||||| || ||||| |||||| ||||||||||||| || || | |||||||||||| || ||||| || || ||||| || |||||||| | |||||||
------------------------------gtagaggtaacacatttcgtcaaagtttctgggcttcattgatgagaactctaattcatgtttttgaatagTGAAATATATGGAAGAGAATTGGTGGACCTGCGGAAAGAAATTCGATGGGAGTTCCTTAATACCCTTTTCTCTGTTTCAGAAGCTGTCATGTTCATGCAG
upper sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 5
----gtgtgcatgttcacacacattattagcttagtagatgtcatttatcg-aaaaccggagtaataatttct--gtagtgctact---taattttatatgca---atggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
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gtatatttgacttttcaacaccattggtaatgtgaagaaaaaagagagttgcaaagtcattgttctgttttgaaggaagtctcattctcttattgtctttgtatggatgaaagTGAGATCTATGGAAGGGAGTTAGTTGACCTGCGGAACCAGAGTCGATGGGAGTTTCTCAATACATTTTTTTCAGTTTCAGAGGCTCTGGCTTATGCACAG
upper sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 5
---gtgtgcatgttcacacacattattagcttagtagatgtcatttatcg-aaaaccggagtaataatttctgtagtgctacttaattttatatgcaatggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
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gtaccctagattttcccg-atgtttgtaatttgat--ttgctaattgtagcaagactagggtaatattttctagagtgcctgttaactttctatgca-tggcagTGAGATGTATGGGAGGGAACTGGTGGATCTGCGAAACGAAAGTCGATGGGTATTCCTCAATACACTATTCTCTGTTTCAGAAGCAGTGGCTTTTATGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgaaaaccggagtaataatttctgtagtgctacttaattttatatgcaatggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
acttaat putative branch site (score: 4)
ttaattttatatgcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgcatgttcacacacattattagcttagtagatgtcatttatcgaaaaccggagtaataatttctgtagtgctacttaattttatatgcaatggaagTGAGATGTATGGGAGAGAACTGGTGGACCTGCGAAAGGAGAGTCGATGGGAGTTTCTCAATACACTGTTTTCTGTGTCTGAAGCTGTGGCCTACATGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - gcatgtt
- - - - - - acacaca
- - - - - - - - - - - - - - - - - - - - - - - gaaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctact