Sequence
atgc intronic sequence ATGC exonic sequencegtaaataggagcaatgtggaagctgctttttttaagttttcttttatatagtatttatatatatattttattttttctagATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
Basic information
species | Glycine max |
transcript | GLYMA20G33140.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaataggagc----aatgtggaagctgctttttttaagttttcttttatatagtatttatatatatattttattttttctagATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
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gtaatatgaagttcatgatcctttttctatattcttgagcttaaggtcttttcgatagttgtgtaaac-ttgtgaattatgcagATGATAAGGCGTGCACTTTTGTCGGGACGGCTGCATATGTTCCTCCTGAAGTTCTAAACTCCTCTCCAGCAACGTTCGG
upper sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 5
----------------------------gtaaataggagcaatgtgga------agctgctttttttaagttttcttttatatagtatttatatatatattttattttttctagATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
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gtaacatgaccgtccataatcctttctggtatctctgagctttaaggtcttatcaataattattgtcagattctgctttaagcc-tgtctctgtaaaactggtgacgtatacagACGATAAGGCGTGCACTTTTGTCGGGACTGCTGCATATGTTCCTCCAGAAGTTCTCAACTCCTCTCCCGCAACTTTCGG
upper sequence: GLYMA20G33140.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 6
--------------------------------------------------------------------------------------------------------gtaaataggagcaatgtggaagctgctttttttaagttttcttttatatag-tatttatatatatattttattttttct----agATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
| | || | | ||| | | | | | | || | || || ||| | | | ||| ||| || |||||| || || || || ||||||||||| ||||||||||| |||||||| ||||| ||||| ||||| ||||| |||||
gtaagactatcatcctgtcattttttgataggtaaatttttctccccattgggacttgaacttccctcccacaaaccctccccatccctttaccacttgaggcaggcctcaagaacggctatcatcctgtcatgatgatgctattttatcaatgactaattaaccaaaaaccatatatttcctgtccagATGATAAGGCTTGTACATTTGTGGGAACTGCTGCTTATGTCCCTCCAGAAGTTCTCAATTCTTCTCCTGCAACGTTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttttttaagttttcttttatatagtatttatatatatattttattttttctagATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
tattttattttttct CT-rich tract
ttttcttttatatagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataggagcaatgtggaagctgctttttttaagttttcttttatatagtatttatatatatattttattttttctagATGACAAAGCCTGCACTTTTGTGGGAACAGCTGCTTATGTTCCTCCAGAGGTTCTTAATTCCTCTCCAGCAACTTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT