Sequence
atgc intronic sequence ATGC exonic sequencegtagttaccacaagagctttcaaatagttttaaaaataattgatgattgtttgtcttatgacatgttaatgttgctaaagatgttctttttatatactgaaatttactattttgatgtactggattgctgtattgcatgtataatagcaattactatttctttcttataccctctctcatttccttataattagGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG
Basic information
species | Glycine max |
transcript | GLYMA14G11070.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G11070.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g51210.2 (Oryza sativa), 3'ss of exon 3
gtagttaccacaagagctttcaaatagttttaaaaataattgatgattgtttgtcttatgacatgttaatgttgctaaagatgttctttttatatactgaaatttac-tattttgatgtactggattgctgtattgcatgtataatagcaattactatttctttcttataccctctctcatttccttataattagGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG
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----------------------------------------------------------------------------------------gtattacactcagttctacatgttttcttg----atactatttgaacgggctaatatttcaaaccaccatgcttaattactgacaacttt--tttgtggacaat-agGAGGGTATGGAACAATGGAGGAGTTGTTAGAGATGATAACTTGGTCACAACTTGGAATTCATGACAAACCA
upper sequence: GLYMA14G11070.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g46360.2 (Oryza sativa), 3'ss of exon 4
gtagttaccacaagagctttcaaatagttttaaaaataattgatgattgtttgtcttatgacatgttaatgttgctaaagatgttctttttatatactga-aatttactattttgatgtactggattgctgtattgcatgtataatagcaattactatttctttcttataccctctctcatttccttataattagGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG
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----------------------------------------------------------------gtaattgataattccaatatatgtgagatggactgacgatctgaaatgttca-gtaccttctttcta-acatcatctatcacactagtaattgataatt-caaatgtaacttggttattgatttttatcagGGGGCTATGGAACAATGGAGGAGCTGTTAGAGATGATAACATGGTGCCAACTTGGAATTCATGACAAGCCA
upper sequence: GLYMA14G11070.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g46360.3 (Oryza sativa), 3'ss of exon 4
gtagttaccacaagagctttcaaatagttttaaaaataattgatgattgtttgtcttatgacatgttaatgttgctaaagatgttctttttatatactga-aatttactattttgatgtactggattgctgtattgcatgtataatagcaattactatttctttcttataccctctctcatttccttataattagGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG-----------------------------
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----------------------------------------------------------------gtaattgataattccaatatatgtgagatggactgacgatctgaaatgttca-gtaccttctttcta-acatcatctatcacactagtaattgataatt-caaatgtaacttggttattgatttttatcagGGGGCTATGGAACAATGGAGGAGCTGTTAGAGATGATAACATGGTGCCAACTTGGAATTCATGACAAGCCAGTAAGCATAATTGAGATATTTGATACTAG
upper sequence: GLYMA14G11070.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G11950.1 (Arabidopsis thaliana), 3'ss of exon 4
gtagttaccacaagagctttcaaatagttttaaaaataattgatgattgtttgtcttatgacatgttaatgttgctaaagatgttctttttatatactgaaatttactattttgatgtactggattgctgtattgcatgtataatagc-aattactatttct-----ttcttataccctctctcatttccttataattagGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG
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--------------------------------------------------------------------------------------------------------------------gtgagaaaacgctttaaaac-tgaatcctagctaattgttaaagttgaaagttttggtatcaaaaactacggggttttgttcagGAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACG
upper sequence: GLYMA14G11070.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv04s0008g01040.t01 (Vitis vinifera), 3'ss of exon 4
gtagttaccacaagagctttcaaatagttttaaaaataattgatgattgtttgtcttatgacatgttaatgttgctaaagatgttctttttatatactgaaatttactattttgatgtactggattgctgtattgcatgtataatagcaattactatttctttcttataccctc-tctcatttccttataatt--agGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG
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------------------------------------------------------------------------------------------------------gtaactaccttgg-acattatattccttaaagacaaaagtag-atcatcttctatatactcaggatactattgtttgagtttcaaattgttgtagGAGGATATGGAACCATGGAAGAGCTGCTGGAGATGATTACATGGTCGCAACTGGGAATTCATAAAAAACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataatagcaattactatttctttcttataccctctctcatttccttataattagGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG
ttactatttctttctt CT-rich tract
aattactatttctttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagttaccacaagagctttcaaatagttttaaaaataattgatgattgtttgtcttatgacatgttaatgttgctaaagatgttctttttatatactgaaatttactattttgatgtactggattgctgtattgcatgtataatagcaattactatttctttcttataccctctctcatttccttataattagGAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG