Sequence
atgc intronic sequence ATGC exonic sequencegtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctagGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTTTCAACCTGTCTTAACATCCTGGTTTCATCTGGTGCTGATGCTCAA
Basic information
species | Glycine max |
transcript | GLYMA19G41840.3 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G41840.3 (Glycine max), 3'ss of exon 21
lower sequence: AT5G27030.1 (Arabidopsis thaliana), 3'ss of exon 21
gtgattac---tatctttaactgttt--ttttcattttaagatttatgttattatttttaatttgtctcatattttct-cttgggtgt-atattcta---gGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTTTCAACCTGTCTTAACATCCTGGTTTCATCTGGTGCTGATGCTCAA
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atagcttcacatatgttttacagtttaattttcccctcactgctaatgttgcc-ttaaaactctatcaacgatctgaaacttgcatattgtgttccatcagGTCAAATCAAAGCTAAAGGGTCACCAGAAACGCATCACAGGCCTAGCATTTTCTACAGCCCTCAACATCTTGGTTTCATCTGGTGCTGATGCACAG
upper sequence: GLYMA19G41840.3 (Glycine max), 3'ss of exon 21
lower sequence: Vv14s0060g01680.t01 (Vitis vinifera), 3'ss of exon 21
gtgattactatctttaactgtttttttcattttaa-gatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctagGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTTTCAACCTGTCTTAACATCCTGGTTTCATCTGGTGCTGATGCTCAA
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gtaattacatgataacattgttcaagtcttatcaatggtttgtgtagccctattaactgatgctgatgtttgctgct----------tctagGTAAAATCAAAACTGAAGGGACACCAAAAACGCGTAACTGGTTTAGCTTTTTCCACCAGTCTAAACATCCTGGTCTCATCTGGTGCTGATGCTCAG
upper sequence: GLYMA19G41840.3 (Glycine max), 3'ss of exon 21
lower sequence: PP1S99_260V6.1 (Physcomitrella patens), 3'ss of exon 21
---------------------------------------------gtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctagGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTTTCAACCTGTCTTAACATCCTGGTTTCATCTGGTGCTGATGCTCAA
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gtatgttatcaagtccttgccagataagttgcgcttttgtgatttgtcacacttgtgttgatgcatatgtctcggttttaa---tataagactgtcgttgatacgcttaataagatttctctgctgt---tcacagGTGAAAAGCAAGTTGAAGGGTCATCAAAAGAGAATTACTGGCTTAGCTTTCTCTAACACTCTCAATGTTCTTGTATCATCCGGAGCGGATGCTCAGMapped 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|7232737|gb|AW568091.1|AW568091EST: TTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAG GTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTT
genomic: TTGGGATGGAGGATTCAACAATTCACATATATAATGTTAGAGTGGATGAGgtgattacta ... tatattctagGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttatgttattatttttaatttgtctcatattttctcttgggtgtatattctagGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTTTCAACCTGTCTTAACATCCTGGTTTCATCTGGTGCTGATGCTCAA
ttttaat putative branch site (score: 3)
tgttattatttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgattactatctttaactgtttttttcattttaagatttatgttattatttttaatttgtctcatattttctcttgggtgtatattctagGTGAAATCTAAATTGAAGGGTCATCAAAAGCGAATTACTGGTTTAGCCTTTTCAACCTGTCTTAACATCCTGGTTTCATCTGGTGCTGATGCTCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT