Sequence
atgc intronic sequence ATGC exonic sequence...gtgctttgtttgattgtttagatttattgtttttattactatactaccataagatgatttggatgtaatctctgaagtatttgtgtcttttcgtgattagGTGCATCTGAAGAAAATATTAGAGAGCTTTTTGCTAAAGCGTACAGGTCTGCGCCTGCTATTGTCTTTATTGACGAGATTGATGCAATTGCATCTAAAAG
Basic information
species | Glycine max |
transcript | GLYMA08G19920.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G19920.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G01610.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgctttgtttgattgtttag--atttattgtttttattactatactaccataagatgatttggatgtaatctctgaagtatttgtgtcttttcgtgattagGTGCATCTGAAGAAAATATTAGAGAGCTTTTTGCTAAAGCGTACAGGTCTGCGCCTGCTATTGTCTTTATTGACGAGATTGATGCAATTGCATCTAAAAG
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-----gtaatgaattgcatatccatttgtccagtttgttgtggctcc-ctctctgatcttattatcgttgtactaatccaatatgcaaatttt-gttctcagGTGCTTCTGAAGAGAATATCAGAGAGCTCTTTTCTAAAGCATATAGGACTGCGCCTTCGATTGTGTTTATCGATGAGATTGATGCGATTGGTTCAAAGAG
upper sequence: GLYMA08G19920.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0010g02600.t01 (Vitis vinifera), 3'ss of exon 1
gtgctttgtttgattgtttagatttattgtttttat-tactatactaccataagatgatttggatgtaatctctgaagtatttgtgtcttttcg--tga-----ttagGTGCATCTGAAGAAAATATTAGAGAGCTTTTTGCTAAAGCGTACAGGTCTGCGCCTGCTATTGTCTTTATTGACGAGATTGATGCAATTGCATCTAAAAG
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-------gaattattattttgttct-tcatccatgtgctcaactctaagatagagaagcttctaaaaagttctaatattatttgtttttgatgggatgaaaatttcagGTGCATCAGAAGAGAATATTAGGGAGCTTTTCTCAAAAGCATACAGGACCGCACCATCAATTGTTTTCATTGATGAAATTGATGCAATTGCCTCAAAAAGMapped 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|7589719|gb|AW705487.1|AW705487EST: TCTTCCTTTCTATCAGATTTCAGCTACTGAGGTGGTTTCTGGAGTTTCAG GTGCATCTGAAGAAAATATTAGAGAGCTTTTTGCTAAAGCGTACAGGTCTG
genomic: TCTTCCTTTCTATCAGATTTCAGCTACTGAGGTGGTTTCTGGAGTTTCAGgtattaggct ... tcgtgattagGTGCATCTGAAGAAAATATTAGAGAGCTTTTTGCTAAAGCGTACAGGTCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accataagatgatttggatgtaatctctgaagtatttgtgtcttttcgtgattagGTGCATCTGAAGAAAATATTAGAGAGCTTTTTGCTAAAGCGTACAGGTCTGCGCCTGCTATTGTCTTTATTGACGAGATTGATGCAATTGCATCTAAAAG
tgtcttttc CT-rich tract
aagtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgctttgtttgattgtttagatttattgtttttattactatactaccataagatgatttggatgtaatctctgaagtatttgtgtcttttcgtgattagGTGCATCTGAAGAAAATATTAGAGAGCTTTTTGCTAAAGCGTACAGGTCTGCGCCTGCTATTGTCTTTATTGACGAGATTGATGCAATTGCATCTAAAAG
-tgctttg
- - - - - - - - - - - - - - - - - - - - - actacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgaa