Sequence
atgc intronic sequence ATGC exonic sequencegtagggttgtgttttgcctgctttgtgcttttgcagccaggagttttatagtttatatatgaaaggcgccactacttatcttttttgcccaaaagttttcacttcattaaataattgtgttaaattcttcaagGTTGGTGATTTTGGACTGGCAAGGTGGCAGCCTGATGGTGACACAGGAGTGGAAACTAGAGTAATTGGAACGTTTGG
Basic information
species | Glycine max |
transcript | GLYMA13G42760.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G42760.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 3'ss of exon 6
gtagggttgtgttttgcctgctttgtgcttttgcagccaggagttttatagtttatatatgaaaggcgccactacttatcttttttgcccaaaagttttcacttcattaaataattgtgttaaattcttcaagGTTGGTGATTTTGGACTGGCAAGGTGGCAGCCTGATGGTGACACAGGAGTGGAAACTAGAGTAATTGGAACGTTTGG
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-------------------acctaatgtctgttgaactcga--ttgtatag---gcatcttgtattcttgttaacttcacaatcctaagataaggttgtaagtct-ttcaataat--------gttctgacagGTTGGAGATTTTGGGTTGGCACGATGGCAACCTGATGGTGACATGGGTGTTGACACGAGAGTAATTGGAACATTCGG
upper sequence: GLYMA13G42760.2 (Glycine max), 3'ss of exon 8
lower sequence: Vv09s0002g02420.t01 (Vitis vinifera), 3'ss of exon 5
-------------------gtagggttgtgttttgcctgctttgtgcttttg-------cagccaggagttttatagt-ttatatatgaaaggcgc-cactacttatcttttttgcccaaaagttttca---------cttcattaaataattgtgttaaattcttcaagGTTGGTGATTTTGGACTGGCAAGGTGGCAGCCTGATGGTGACACAGGAGTGGAAACTAGAGTAATTGGAACGTTTGG
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gtatgccagtttcttaatcttatttccattttttcaaagttaaacatatttgaacgtgataaataagacaattgtgatgttattttttcaaggggtatggaatctgtgttttacttggtaaagatagcatatagaaagcttgaccttactcctacttttgctttgattagGTTGGGGATTTTGGCCTGGCTAGGTGGCAGCCTGATGGAGACACGGGTGTGGAAACAAGAGTAATTGGAACATTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttttttgcccaaaagttttcacttcattaaataattgtgttaaattcttcaagGTTGGTGATTTTGGACTGGCAAGGTGGCAGCCTGATGGTGACACAGGAGTGGAAACTAGAGTAATTGGAACGTTTGG
ttcttc CT-rich tract
ttcattaaataattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagggttgtgttttgcctgctttgtgcttttgcagccaggagttttatagtttatatatgaaaggcgccactacttatcttttttgcccaaaagttttcacttcattaaataattgtgttaaattcttcaagGTTGGTGATTTTGGACTGGCAAGGTGGCAGCCTGATGGTGACACAGGAGTGGAAACTAGAGTAATTGGAACGTTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA