Sequence
atgc intronic sequence ATGC exonic sequence...cacttgcaacatttaagttatagctgaactattttatttttgttcaccttttagatgttaagagtcatgctgttaatttttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
Basic information
species | Glycine max |
transcript | GLYMA19G02260.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 4
-------------------------------------------------------------------------cacttgcaacatttaagttatagctgaactattttatttttgttcaccttttagatgttaagagtcatgctgttaatt----------tttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
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gtacgtctctaaacaaatttatgaatatcgtttttacttttggttttatcctatttaattcatggatttgtaccaattctctctattagattatatggagagagtgtagttaatgattatcaagtaccattatattcttggaccacaaattcaccagggactttactccctttactgtttcagTTGGCCGATTTGTGATTGTTTGATTGCTTTCTATTCCTCTGGATATCCTCTTGAGAAAGTTCAAGCATATTCTTCTTTAAGAAA
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 4
-----------------------------------cacttgcaacatttaag--ttatagctgaactattt--------tatttttgttcaccttttagatgttaagagtcatgctg---ttaa----tttttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
||| || ||| | | | | ||||| | | || | | | | | ||| | || ||| | || || | | | | | |||||| ||||| || |||||||| ||||||||||| ||||||| |||||||| ||||| |||||| |||||||||| ||||||||||
gtattctgtaccaaatagagctctcttttggctttaactcatgttatgaaagattcgttgttagtgtatttagacaaactgtagctgaatatatatcaagtacaaagtat-atactggaatcaaaactttaccagactgtttactctttcagTTGGCCCATTTGTGATTGCTTGATTGCTTTTCATTCCTCTGGATATCCTCTTGAGAAGGCTCAGGCATATGCTGCTTTAAGAAA
upper sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 3
---cacttgcaacatttaagttatagctgaactattttatttttgttcaccttttagatgttaagagtcatgctgttaatttttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
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tgatttcagctatttataagttgagggtgtcct-tgtaacataatcatgcggtttggtctctgattgatgtctaatttgttgcc--atgctcgcttacttcagCTGGCCAATATGTGATTGCTTGGTTGCCTTCTATTCATCTGGCTACCCTCTTGAAAAGGCTGAAGCTTATGCTGCTTTGAGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accttttagatgttaagagtcatgctgttaatttttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
tgttaat putative branch site (score: 3)
ttatttc putative PPT
tgttaatttttaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacttgcaacatttaagttatagctgaactattttatttttgttcaccttttagatgttaagagtcatgctgttaatttttaaatattgtgttatttcagCTGGCCAATATGTGATTGTTTGATTGCTTTCTATTCCTCGGGATATCCCCTTGAAAAGGCTGCGGCATATGCTACTTTAAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
cacttgc
- - - - - - - - - - -agctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgct