Sequence
atgc intronic sequence ATGC exonic sequencegtataccattgtctatgaatgcccctttattttattggagaataacataataacataaatctatcatatgacccatttctttgcaaacagAATTTGCCTGATGGAGTCCGGTTAAGAGGTGATATCAATGTATTGCTTCTGGGTGATCCATCTACAGCAAAGTCACAG
Basic information
species | Glycine max |
transcript | GLYMA13G22420.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G22420.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os02g55410.1 (Oryza sativa), 3'ss of exon 8
gtataccattg--tctatgaatgcccc-tttattttattggagaataacataataacataaatcta--tcatatgacccat---------ttctttgcaaacagAATTTGCCTGATGGAGTCCGGTTAAGAGGTGATATCAATGTATTGCTTCTGGGTGATCCATCTACAGCAAAGTCACAG
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gtatatttttgatcttatcagtggctaatatgtgaaaatacaaagttgtgttggatccagtggctagttggaatgagctgtaactaaactttcttctatggcagAGGCTACCGGATGGTGTCCGTTTGAGAGGGGACATTCATGTCTTGCTGCTGGGTGATCCATCAACAGCAAAATCACAG
upper sequence: GLYMA13G22420.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G450055_T01 (Zea mays), 3'ss of exon 8
gtataccattgtctatgaatgcccctttattttat-tggagaataacataataacataaatctatcatatgacccatttctttgcaa----------acagAATTTGCCTGATGGAGTCCGGTTAAGAGGTGATATCAATGTATTGCTTCTGGGTGATCCATCTACAGCAAAGTCACAG
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gtatgc-attct-tatcaa-gcccctatatgttttgtagaaaaaaatgctcctccatttgccctaattatgtccttattcttcgaactactctcactgcagAGGCTACCTGATGGTGTACGTTTGAGAGGGGACATTCATGTCTTGCTTCTGGGTGACCCATCCACAGCAAAATCACAG
upper sequence: GLYMA13G22420.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0149g00130.t01 (Vitis vinifera), 3'ss of exon 7
gtataccattgtctatgaatgcccctttattttattggagaataacataataacataaatctatca---tatgacccatttctttgcaaa--cagAATTTGCCTGATGGAGTCCGGTTAAGAGGTGATATCAATGTATTGCTTCTGGGTGATCCATCTACAGCAAAGTCACAG
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------------------gtatactttgaacttgtacctttttaacatatttatatag-tttatcaaagcataatcacttcctctgtaagtgcagAATTTACCAGATGGTGTGAAATTAAGAGGTGATATCAATGTGCTGCTTTTGGGGGATCCATCCACTGCTAAATCACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggagaataacataataacataaatctatcatatgacccatttctttgcaaacagAATTTGCCTGATGGAGTCCGGTTAAGAGGTGATATCAATGTATTGCTTCTGGGTGATCCATCTACAGCAAAGTCACAG
taataac putative branch site (score: 1)
cccatttcttt putative PPT
aataacataataacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataccattgtctatgaatgcccctttattttattggagaataacataataacataaatctatcatatgacccatttctttgcaaacagAATTTGCCTGATGGAGTCCGGTTAAGAGGTGATATCAATGTATTGCTTCTGGGTGATCCATCTACAGCAAAGTCACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG