Sequence
atgc intronic sequence ATGC exonic sequencegtgattgccatattactaaatactattgtttttccttctgaacagcttactgctttttcaagtattattaatagcataaatcatgattcatgacagTATACTAGGACAGCAGAGAGGGAAGCCATTTTGATCCGGCCTATGCCTATCCTGCAAAAGACAATTGATTATCTGCTCACTTTGCTAGATCAGCCTTATG
Basic information
species | Glycine max |
transcript | GLYMA13G28300.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G06290.1 (Arabidopsis thaliana), 3'ss of exon 11
--------gtgattgccatattactaaatactattgtttttccttctgaacagcttact-gctttttcaagtattat--taatagcataaat-catgattcatgacagTATACTAGGACAGCAGAGAGGGAAGCCATTTTGATCCGGCCTATGCCTATCCTGCAAAAGACAATTGATTATCTGCTCACTTTGCTAGATCAGCCTTATG
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gtaagctcacctttttaatatcatttaagcttcagattctttcttagatgaaatatactagaccactcatttgccatgatgactacttatatatctgcctttggatagTATACTAGGACGGCGGAGCGAGAAGCAATTTTGATACGACCAATGCCAATCCTGCAAAATACAATGGAATATTTGCTGAGTTTGCTAGACCGACCTTACA
upper sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 6
gtgattgccatattactaaatactattgtttttccttctgaacagcttactgctttttca--------agtattattaatagcataaatcatgattc-atgacagTATACTAGGACAGCAGAGAGGGAAGCCATTTTGATCCGGCCTATGCCTATCCTGCAAAAGACAATTGATTATCTGCTCACTTTGCTAGATCAGCCTTATG
|| || | ||| || | | ||| | | |||| ||| | | |||| | | | || || | | |||||| | ||||||| ||||||||||||||| ||||| | ||||| || || ||||| ||||||| |||||||||||||||| || | ||||||| || |||||||||
---ttttccctcttaagcaaacatgtgttttctttatatgaattactttgtcataattcataagaggaaatgtgatggatgttttta--tgtgattctaattcagTATAATAGGACAGCAGAGAGAGAAGCGGTCTTGATACGTCCCATGCCGGTCCTGCAGCAGACAATTGATTATCTTCTGAATTTGCTATATGAGCCTTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagcttactgctttttcaagtattattaatagcataaatcatgattcatgacagTATACTAGGACAGCAGAGAGGGAAGCCATTTTGATCCGGCCTATGCCTATCCTGCAAAAGACAATTGATTATCTGCTCACTTTGCTAGATCAGCCTTATG
tattaat putative branch site (score: 2)
tttttcaagtattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattgccatattactaaatactattgtttttccttctgaacagcttactgctttttcaagtattattaatagcataaatcatgattcatgacagTATACTAGGACAGCAGAGAGGGAAGCCATTTTGATCCGGCCTATGCCTATCCTGCAAAAGACAATTGATTATCTGCTCACTTTGCTAGATCAGCCTTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA