Sequence
atgc intronic sequence ATGC exonic sequencegcatgtaacttaaagcagttgtcagtggtttgctgttatcttttagcttaggtttatgctgattattggatgtcactccaggaatggttcaactttcaaatctaactacacgtaattttttagGACCAAGGATTGGATGTGATTGCTGAAGGATTGGATACATTGAAAAATATGGCACATGATATGAATGAG
Basic information
species | Glycine max |
transcript | GLYMA13G20220.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G20220.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G057251_T01 (Zea mays), 3'ss of exon 4
gcatgtaacttaaagcagttgtcagtggtttgctgttatcttttagcttaggtttatgctgattattggatg--tcactccaggaatggttcaactttcaaatctaactac----acgtaattttttagGACCAAGGATTGGATGTGATTGCTGAAGGATTGGATACATTGAAAAATATGGCACATGATATGAATGAG
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--------------gtaaat-tcactgagccactttcctcctttctgtttcatattctcttgctactggatgcatttcctctcaatttgtcatatggtgtaacttgtctttggcaataaaattgtgcagGATGAAGGTTTGGACGTTATTGGTGAAGGACTGGAAACTTTGAAAAACATGGCATCTGATATGAATGAG
upper sequence: GLYMA13G20220.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0040g02130.t01 (Vitis vinifera), 3'ss of exon 4
gcatgtaacttaaagcagttgtcagtggtttgctgttatcttttagcttaggtttatgctgattattgga--tgtcactccagga-atggttcaactttcaaatc-taactacacgtaattttt---tagGACCAAGGATTGGATGTGATTGCTGAAGGATTGGATACATTGAAAAATATGGCACATGATATGAATGAG
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----gtaagtctatgtggattgtattactt---aattatcagaaaagatgcactattttctattatcagagctgcatcttttggctatgtttcctgtatcacattataatcttctttaacatttgtgcagGACCAAGGTTTGGATGTGATAGCAGAAGGTTTGGACACATTGAAAAACATGGCCCATGATATGAATGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|308222721|gb|HO760631.1|HO760631EST: AACAATCAAGTCAATTTAGGCAGGAATATGAAATGCGTAGAATGAAACAG GACCAAGGATTGGATGTGATTGCTGAAGGATTGGATACATTGAAAAATATG
genomic: AACAATCAAGTCAATTTAGGCAGGAATATGAAATGCGTAGAATGAAACAGgcatgtaact ... aattttttagGACCAAGGATTGGATGTGATTGCTGAAGGATTGGATACATTGAAAAATATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatgtcactccaggaatggttcaactttcaaatctaactacacgtaattttttagGACCAAGGATTGGATGTGATTGCTGAAGGATTGGATACATTGAAAAATATGGCACATGATATGAATGAG
atctaac putative branch site (score: 2)
tttttt putative PPT
taatttttta 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcatgtaacttaaagcagttgtcagtggtttgctgttatcttttagcttaggtttatgctgattattggatgtcactccaggaatggttcaactttcaaatctaactacacgtaattttttagGACCAAGGATTGGATGTGATTGCTGAAGGATTGGATACATTGAAAAATATGGCACATGATATGAATGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG