Sequence
atgc intronic sequence ATGC exonic sequence...gtagaagtagtatcttcaataccatccttaaaggttaagactttgatgtggatagctttcactcttctttaagtatgtgttgttttgtctgtttttacagGTTTGTATTTGCACCCTTGTGGTTGTTTCATGCTGTGATTGCTCGTGGTAGATTTTCATTGCCTGCTCCATCAATGCCTCATGATCGACAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G68820.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G68820.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA10G34710.1 (Glycine max), 3'ss of exon 1
gtagaagtagtatcttcaa-taccatccttaaaggttaagactttgatgtggatagctttcactcttctttaagtatgtgttgt--tttgtctgtttttacagGTTTGTATTTGCACCCTTGTGGTTGTTTCATGCTGTGATTGCTCGTGGTAGATTTTCATTGCCTGCTCCATCAATGCCTCATGATCGACAT
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--gataatcatgtcttaaaatattattgcaaagaagatatagattaagatagatcatatt-attcctataatagctaatattgtaacatgtcctttttggcagGAAGGTATTTTTTCCTCTATGGGCTTTTCATGCTGTGGTAGCACGAGGCAGGTTTTCCTTGCCTGCTCCTTCGATGCCTCATGATCGCCAA
upper sequence: AT1G68820.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv01s0011g02950.t01 (Vitis vinifera), 3'ss of exon 1
--gtagaagtagtatcttcaataccatcct--taaaggttaagactttgatgtggatagctttcactcttctttaagtatgtgttgttttgtctgtttttacagGTTTGTATTTGCACCCTTGTGGTTGTTTCATGCTGTGATTGCTCGTGGTAGATTTTCATTGCCTGCTCCATCAATGCCTCATGATCGACAT
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gtgttattcagctgcatccagtgctgggctgctaaagaatagaattatattgttcct--cttcaagttttgcattgttactagtt--ttggcttggttttgtagGATCATTTTTGCTCCTCTCTGGCTGTTTCATGCAGTTGTGGCAAGAGGCAGATTCTCCTTACCTGCCCCATCAATGCCTCATGATCGACATMapped 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|164066337|gb|ES171559.1|ES171559EST: TGTTGTTTCTCATTCATGGTG GTTTGTATTTGCACCCTTGTGGTTGTTTCATGCTGTGATTGCTCGTGGTAG
genomic: TGTTGTTTCTCATTCATGGTGgtcagttttt ... gtttttacagGTTTGTATTTGCACCCTTGTGGTTGTTTCATGCTGTGATTGCTCGTGGTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtggatagctttcactcttctttaagtatgtgttgttttgtctgtttttacagGTTTGTATTTGCACCCTTGTGGTTGTTTCATGCTGTGATTGCTCGTGGTAGATTTTCATTGCCTGCTCCATCAATGCCTCATGATCGACAT
ctttgat putative branch site (score: 5)
ttttgtctgttttt putative PPT
tttaagtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaagtagtatcttcaataccatccttaaaggttaagactttgatgtggatagctttcactcttctttaagtatgtgttgttttgtctgtttttacagGTTTGTATTTGCACCCTTGTGGTTGTTTCATGCTGTGATTGCTCGTGGTAGATTTTCATTGCCTGCTCCATCAATGCCTCATGATCGACAT
- agaagta
- - - - - - - - -aatacca
- - - - - - - - - - - - -ccttaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttttg