Sequence
atgc intronic sequence ATGC exonic sequence...gattcatttattgagaattatggtactcgattgactttactccattccttttccatccggacttgttcaacttactctctctgggtttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACGGTTGCCCAGAAATATTACAGATCCATCAGTGGTTACAAT
Basic information
species | Glycine max |
transcript | GLYMA05G36930.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G36930.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G64390.1 (Arabidopsis thaliana), 3'ss of exon 3
---gattcatttattgagaattatggtac-tcgattgacttta-ctccattccttttccatccggacttgttcaacttactctctctgggtttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACGGTTGCCCAGAAATATTACAGATCCATCAGTGGTTACAAT
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acgaaaacgccactccccacccaaaacttgtaaactaaccttgtctttaatgttttacta--cggatttgccaccctaattccattt---tttgtttggttacagTTGTTTGATTTCGCCGACAAATACAGAGGAAAATACGACAGCAGTATCACTGTTGCCCAGAAATACTACCGATCCGTCAGCGGTTACAAT
upper sequence: GLYMA05G36930.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G11050.1 (Arabidopsis thaliana), 3'ss of exon 3
gattcatttattg--agaattatggtactcgattgactttactccattccttttccatccggacttgttcaacttactctctctgggtttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACGGTTGCCCAGAAATATTACAGATCCATCAGTGGTTACAAT
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ttttggctaggtgcaaaaacgtagatagtagaaataaccttctcaactcataat--atttacgattgtgctactgatcctaatgcaattcttatattgccagCTATTTGAATTTGCGGACAAATACAGAGGCAAATATGACAGCAGCATTACCGTGGCACAAAAATATTACCGATCCGTCAGCGGTTACAAT
upper sequence: GLYMA05G36930.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g01380.t01 (Vitis vinifera), 3'ss of exon 5
--------gattcatttattgagaattatggtactcgattgactttactccattccttttccatccggacttgttcaacttactctctctgggtttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACGGTTGCCCAGAAATATTACAGATCCATCAGTGGTTACAAT
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cttcccctcaacctctcttcccaaactacccttcatgttttatcata-tctactgaattacccttcagtc---actaacacatgttctaaaatcttatt----ttcagCTGTTCGAGTTTGGAGACAAATACAGGGGCAAATATGACAGCAGCATCACAGTGGCCCAGAAGTACTACCGGTCTTACAGTGGATACGCTMapped 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|21677228|gb|BQ629579.1|BQ629579EST: GACGCTCTAACCCTGCCTATGCCGCCGAACTCCTCCGCCATGCCTACCAG CTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACG
genomic: GACGCTCTAACCCTGCCTATGCCGCCGAACTCCTCCGCCATGCCTACCAGgtagtacaca ... tcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccttttccatccggacttgttcaacttactctctctgggtttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACGGTTGCCCAGAAATATTACAGATCCATCAGTGGTTACAAT
aacttac putative branch site (score: 2)
tttgttc putative PPT
ttcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gattcatttattgagaattatggtactcgattgactttactccattccttttccatccggacttgttcaacttactctctctgggtttgttcaatttcagCTATTTGATTTTGCTGACAAATACAGAGGCAAATATGACAGCAGCATTACGGTTGCCCAGAAATATTACAGATCCATCAGTGGTTACAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctctctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggtttg