Sequence
atgc intronic sequence ATGC exonic sequence...tttttttttttggttcgttaatttatagttgatttgatctgtccttttttttattccatggctcgaccccccttcttggtgtttcacttctgctgtacagAGCATATAGGAACAAAGACTGCCGTGCAAATAAGGAGTCATGCACAGAAGTTCTTTACAAAG
Basic information
species | Glycine max |
transcript | GLYMA16G01980.4 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G01980.4 (Glycine max), 3'ss of exon 3
lower sequence: AT1G01060.2 (Arabidopsis thaliana), 3'ss of exon 3
---------------------tttttttttttggttcgttaa---tttatagt----tgatttgatctgtccttttttttattccatggctcgaccccccttcttggtgtttcacttctgctgtacagAGCATATAGGAACAAAGACTGCCGTGCAAATAAGGAGTCATGCACAGAAGTTCTTTACAAAG
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gtcgaaagtttatcttttgaatgtttagtttgaactctttgagattttatattcctttgtttaggagtgtctttatctcctcttgattgggagattcc--ttcttttcttttcattttg--tgtgcagAACATATTGGGACAAAGACTGCTGTTCAGATCAGAAGTCATGCACAAAAGTTCTTCACAAAG
upper sequence: GLYMA16G01980.4 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0048g02410.t01 (Vitis vinifera), 3'ss of exon 2
tttttttttttggttcgttaatttatagttgatttgatctgtccttttttttattccatggctcgacccccctt---cttggtgtttcacttctgctgtacagAGCATATAGGAACAAAGACTGCCGTGCAAATAAGGAGTCATGCACAGAAGTTCTTTACAAAG
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-atctattatgaataacatggaatgttgtc--ttttaattatacttagtcttacttggagatctgttccttcctttcctttgtttttatttggtggtgtgcagAACATATAGGAACAAAGACTGCTGTGCAAATCAGAAGTCATGCACAAAAATTCTTTTCAAAGMapped 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|5606400|gb|AI900554.1|AI900554EST: GTTTCTAGAAGCTNTGAAACTACACGGGCGACCATGGCAGCGCATAGAAG AGCATATAGGAACAAAGACTGCCGTGCAAATAAGGAGTCATGCACAGAAGT
genomic: GTTTCTAGAAGCTTTGAAACTACACGGGCGAGCATGGCAGCGCATAGAAGgtgatagtgt ... tgctgtacagAGCATATAGGAACAAAGACTGCCGTGCAAATAAGGAGTCATGCACAGAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttattccatggctcgaccccccttcttggtgtttcacttctgctgtacagAGCATATAGGAACAAAGACTGCCGTGCAAATAAGGAGTCATGCACAGAAGTTCTTTACAAAG
tttcacttct CT-rich tract
ttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttttttttggttcgttaatttatagttgatttgatctgtccttttttttattccatggctcgaccccccttcttggtgtttcacttctgctgtacagAGCATATAGGAACAAAGACTGCCGTGCAAATAAGGAGTCATGCACAGAAGTTCTTTACAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT