Sequence
atgc intronic sequence ATGC exonic sequence...aaattgttgacattaaagtttctcatatgatattgttgctacatatatgagacaataatcttgttgatatgagcttatggaaaatttatttattctcaggATTTTAGTCATTGGTCTGGTTATGATCCATGTACGGAAAAGTATGCAGAGATTTACTACAACAGGCCTGATGTTCAGAAAGCACTCCATGCCAACAAAAC
Basic information
species | Glycine max |
transcript | GLYMA18G50170.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G50170.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G02110.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------------aaattgttgacattaaagtttctcatatgatattgtt--gctacatatatgagacaataatcttgttgatatg-agctta---tggaaaatttatttattctcaggATTTT------AGTCATTGG--------TCTGGTTATGATCCATGTACGGAAAAGTATGCAGAGATTTACTACAACAGGCCTGATGTTCAGAAAGCACTCCATGCCAACAAAAC
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gtaagaatttgtctcctctgtttcttcttttacttggttgatccggttatgttgttattttgtttca-atgtgataatgtattactagttatctgtggtttagttttgaataatt-ttggttttccggttcttgggagtagGTATTGAGGAAAATTTCCGGTTATGATCCATGTACCGAGAGATATGCAGAGATCTATTATAACCGGCCTGATGTTCAGAAAGCTCTTCACGCCAACACCA-
upper sequence: GLYMA18G50170.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0068g00260.t01 (Vitis vinifera), 3'ss of exon 4
aaattgttgacattaaagtttctcatatgatattgttgctacatatatgagacaataatcttgttgatatgagcttatggaaaatttatttattctcaggATTTTAGTCATTGGTCTGGTTATGATCCATGTACGGAAAAGTATGCAGAGATTTACTACAACAGGCCTGATGTTCAGAAAGCACTCCATGCCAACAAAAC
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gtatttttttctttaacacaatgagattatttttataatcatacatatgaaa----attctcatctctttctccttccttgg--cctgtatattctcagATTTTCAGGCAGATATCTGGCTATGATCCATGTACTGAAAAATATGCTGAGATTTACTACAATAGGCCTGATGTGCAGAAAGCACTGCATGCCAATACTA-Mapped 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|13791305|gb|BG653896.1|BG653896EST: TAGCTCTGCCAACCGCCGCACCATGCGTTTACCTCACCGACCCCATGTGG ATTTTAGTCATTGGTCTGGTTATGATCCATGTACGGAAAAGTATGCAGAGA
genomic: TAGCTCTGCCAACCGCCGCACCATGCGTTTACCTCACCGACCCCATGTGGtatttaattt ... tattctcaggATTTTAGTCATTGGTCTGGTTATGATCCATGTACGGAAAAGTATGCAGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatgagacaataatcttgttgatatgagcttatggaaaatttatttattctcaggATTTTAGTCATTGGTCTGGTTATGATCCATGTACGGAAAAGTATGCAGAGATTTACTACAACAGGCCTGATGTTCAGAAAGCACTCCATGCCAACAAAAC
tgttgat putative branch site (score: 4)
tttattctc putative PPT
ttatggaaaatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaattgttgacattaaagtttctcatatgatattgttgctacatatatgagacaataatcttgttgatatgagcttatggaaaatttatttattctcaggATTTTAGTCATTGGTCTGGTTATGATCCATGTACGGAAAAGTATGCAGAGATTTACTACAACAGGCCTGATGTTCAGAAAGCACTCCATGCCAACAAAAC
- - tgttgac
- - - - - - - - - - - - - - - - -tgttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttatg