Sequence
atgc intronic sequence ATGC exonic sequencegtatgtcactctctccttttctcccttacataaatttttgtctctgtggaacaaatgcgagccaccataccatgaaaggccttataatgaatcacctatgcttctggactttatctgacatgaaacgtttttgtgcctgtaaaaactgattagTTCAAACCCGATCCTCGGTTCGAAGAGGCAAAGCAGTTTGTCAAAAGTGGAGTGTTTGGGAGCTACGATTATGGTCCACTCCTTGATTCTCTTGAGGGTA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G46970.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA08G45210.1 (Glycine max), 3'ss of exon 14
gtatgtcactctctccttttctcccttacataaatttttgtctctgtggaacaaatgcgagccaccataccatgaaaggccttataatgaatcacctatgcttctggactttatctgacatgaaacgtttttgtgcctgtaaaaactgattagTTCAAACCCGATCCTCGGTTCGAAGAGGCAAAGCAGTTTGTCAAAAGTGGAGTGTTTGGGAGCTACGATTATGGTCCACTCCTTGATTCTCTTGAGGGTA
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---------------------------------------aataagctaattcaaatttaaacatgtgtaactttaaattcccgtaaaagtatttctaacattactgtttttttttttttttt-----ttttttttttttta---------tagTTCAAACCCGATCCTCGATTTGAAGAGGCAAAGAAGTTTATTAGGAGTGGGGTGTTTGGAAGCTATGACTATAATCCATTGCTTGAGTCCTTGGAAGGAA
upper sequence: AT3G46970.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA18G07480.1 (Glycine max), 3'ss of exon 13
gtatgtcactctctccttttctcccttacataaatttttgtctctgtggaacaaatgcgagccaccataccatgaaaggccttataatgaatcacctatgcttctggactttatctgacatgaaacgtttttgtgcctgtaaaaactgat-tagTTCAAACCCGATCCTCGGTTCGAAGAGGCAAAGCAGTTTGTCAAAAGTGGAGTGTTTGGGAGCTACGATTATGGTCCACTCCTTGATTCTCTTGAGGGTA
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-------------------------------------------------aacgactattttttttcaaaatagctaa----ttcaatttaaacacatgtaactttaaattcc-tagaaaagtaattctattaacatcaccgcatttttctatagTTTAAACCCGATCCTCGATTTGAAGAGGCAAAGAAGTTTATTAGGAGTGGGGTGTTTGGAAGCTATGACTATAATCCATTGCTCGAGTCTTTGGAAGGAAMapped 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|124834683|gb|EH919122.1|EH919122EST: CAACGGCCGATCAGGTCCCTCGACTGCGTAAAGAACGAGAAGACGGACTG TTCAAACCCGATCCTCGGTTCGAAGAGGCAAAGCAGTTTGTCAAAAGTGGA
genomic: CAACGGCCGATCAGGTCCCTCGACTGCGTAAAGAACGAGAAGACGGACTGgtatgtcact ... aactgattagTTCAAACCCGATCCTCGGTTCGAAGAGGCAAAGCAGTTTGTCAAAAGTGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcttctggactttatctgacatgaaacgtttttgtgcctgtaaaaactgattagTTCAAACCCGATCCTCGGTTCGAAGAGGCAAAGCAGTTTGTCAAAAGTGGAGTGTTTGGGAGCTACGATTATGGTCCACTCCTTGATTCTCTTGAGGGTA
atctgac putative branch site (score: 3)
tgtaaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtcactctctccttttctcccttacataaatttttgtctctgtggaacaaatgcgagccaccataccatgaaaggccttataatgaatcacctatgcttctggactttatctgacatgaaacgtttttgtgcctgtaaaaactgattagTTCAAACCCGATCCTCGGTTCGAAGAGGCAAAGCAGTTTGTCAAAAGTGGAGTGTTTGGGAGCTACGATTATGGTCCACTCCTTGATTCTCTTGAGGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT