Sequence
atgc intronic sequence ATGC exonic sequencegtactgtattcaaaataagagagttcaagaaattgacattgtgtttttactatgagattaattttctctgcaaatggaacaaacagATTGAAAGTAACAACACGAATGCTGCTGACGCCATTATGCTTGACAAAGATGGTTATGTGTCTGAAACCAATGCAACCAACATT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G05190.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G05190.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: GLYMA10G29770.1 (Glycine max), 3'ss of exon 15
-----------------------------------------------------------------------gtactgtattcaaaataagagagttcaagaaattgacat-----tgtgtttttactatgag-attaattttctctgcaaatggaacaaa-----------------cagATTGAAAGTAACAACACGAATGCTGCTGACGCCATTATGCTTGACAAAGATGGTTATGTGTCTGAAACCAATGCAACCAACATT
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gtattttttttcctctcgtgaatttttacatgtaattattacagcaaattgtatcaggtaatgaataatatgcaaccatgtggaaacggatgcttttaatggcttttcatgctaatatcctgtcattctgaataatatttcttgcagcttatcacaaaaaagtctttatttctgttacagATTGAAGGTAATAATGCAAAAGCAGATGATGCAATCATGCTTGACAAAGACGGTTATGTATCTGAAACCAATGCAACAAACATG
upper sequence: AT3G05190.1 (Arabidopsis thaliana), 3'ss of exon 14
lower sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 24
-----------------------gtactgtattcaaaataagagagttcaagaaattgacattgtgtttttactatgagattaattttctctgcaaatggaacaaacagATTGAAAGTAACAACACGAATGCTGCTGACGCCATTATGCTTGACAAAGATGGTTATGTGTCTGAAACCAATGCAACCAACATT
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tctggtggtagcccttcattgtccttatgcattcatacatgtacagatctattatgtcttgttggattttaactt--aaattagttattt-------ggggtggtacagATAGAAGGGAATAATGCAAATGCTGATGATGCAATCATGCTTGACAAGGATGGTTATGTTTCTGAAACAAATGCTACAAACATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgacattgtgtttttactatgagattaattttctctgcaaatggaacaaacagATTGAAAGTAACAACACGAATGCTGCTGACGCCATTATGCTTGACAAAGATGGTTATGTGTCTGAAACCAATGCAACCAACATT
gattaat putative branch site (score: 3)
tttttactatgagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtattcaaaataagagagttcaagaaattgacattgtgtttttactatgagattaattttctctgcaaatggaacaaacagATTGAAAGTAACAACACGAATGCTGCTGACGCCATTATGCTTGACAAAGATGGTTATGTGTCTGAAACCAATGCAACCAACATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG