Sequence
atgc intronic sequence ATGC exonic sequenceTCCTGGTGATTTTATCCATGTGATTGGAGATGCTCATGTTTACAAAAACCATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCTgtgagtataaacaaacacatgatttgctgattcttcaatcttgtttgagtttgatgaatgcataatctaccaataattctttgcaactatatgcttatttatctttgggatatttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34570.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA04G01240.1 (Glycine max), 5'ss of exon 10
TCCTGGTGATTTTATCCATGTGATTGGAGATGCTCATGTTTACAAAAACCATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCTgtgagtataaa--caaacacatgatttgctgattcttcaatcttgtttgagtttgatgaatgcataatctaccaataattctttgcaactatatgcttatttatctttgggatatttacag
||| ||||||||||||||||| ||||| ||||| ||||||||| || ||||| |||||| |||| ||||| || | |||| |||||||||||||| || || ||| ||||| | ||| || |||| || ||| ||| ||| | |||||||| | |||||
TCCAGGTGATTTTATCCATGTTATTGGGGATGCACATGTTTACTGCAATCATGTGAGGCCTTTGCAGGAGCAGCTCCATAACCAGCCAAAACCTTTTCCAgtatgtgtaatgtttaacacttcttttactttatcttttggctctttta--cttgttgaccccctaatctac-------ttcttgcag---------------------------------
upper sequence: AT4G34570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA12G04480.1 (Glycine max), 5'ss of exon 10
TCCTGGTGATTTTATCCATGTGATTGGAGATGCTCATGTTTACAAAAACCATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCTgtgagtataaacaaacacatgatttgctgattcttcaatcttgtttgagtttgatgaatgcataatctaccaataattctttgcaacta---tatgcttatttatctttgggatattta--cag
||| ||||||||||||||||| ||||| ||||| ||||||||| || ||||| || || |||| || || || |||||| ||||||||||||||| || || |||| | || | | | ||| ||| | | | | | ||| || | | | |||| | || | | | ||| || || | | || |||
TCCAGGTGATTTTATCCATGTTATTGGGGATGCACATGTTTACCGCAATCATGTGAGACCCTTGCAGGAACAGCTCCAGAACCAACCAAAACCTTTTCCAgtatgtgtaaatgtttaaggatttcgtt--tgctttaatgtagatg----ctcacaaatattta--ccattatgcattcgtataaattgccttttccttgttgattacctaaacttctattcag
upper sequence: AT4G34570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA06G01280.3 (Glycine max), 5'ss of exon 10
TCCTGGTGATTTTATCCATGTGATTGGAGATGCTCATGTTTACAAAAACCATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCTgtgagtataa--acaaacacatgatttgctgattcttcaatcttgtttgagtttgatgaatgcataatctaccaataattctttgcaactatatgcttatttatctttgggatatttacag
||||||||||||||| ||||| ||||| ||||||||| ||||| || || || |||||| |||| ||||| || | |||| ||||| |||||||| || || ||| | ||| | || | |||| || ||| ||| | | | |||| ||| ||| |||||
TCCTGGTGATTTTATTCATGTTATTGGGGATGCTCATATTTACCGCAATCACGTGAGGCCTTTGCAGGAGCAGCTCCATAACCAGCCAAAGCCTTTTCCAgtatgtgtaatgtttagcacttctttaagtttatcttttgactctttta--cttgtttaccccctaatgtac------ttcattgcag---------------------------------
upper sequence: AT4G34570.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv18s0001g12940.t01 (Vitis vinifera), 5'ss of exon 9
TCCTGGTGATTTTATCCATGTGATTGGAGATGCTCATGTTTACAAAAACCATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCTgtgagtataaacaaacacatgatttgctgattcttcaatcttgtttgagtttgatgaatgcataatctaccaataattctttgcaactatatgcttatttatctttgggatatttacag
||||||||||| |||| | ||||| ||||||||| |||| |||| ||| | ||||||||| | ||||| ||| |||| | || |||||||| ||||||||||||| ||| | | | | | |||| || ||| ||| | | | || | |||||| ||| | | | | | | | | | ||||
CCCTGGTGATTTCATCCTCATAATTGGTGATGCTCATATTTATAAAACTCATATTAGGCCTCTGGAGGAGCAGCTTCAGAAACTTCCTAAACCTTTCCCTgtgagtataa-caagtaaaacag-------------gaaccaagttgaattggataaat-tttgttatgttaa-aggtctttggcactctgttttcggtaaatgt--gcgtgtgtaca-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|19741045|gb|AU226398.1|AU226398EST: ATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCT GTTTTGAAGATAAATCCAGAGAAGAAAGATATAGATTCTTTTGTTGCGGAT
genomic: ATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCTgtgagtataa ... atatttacagGTTTTGAAGATAAATCCAGAGAAGAAAGATATAGATTCTTTTGTTGCGGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCTGGTGATTTTATCCATGTGATTGGAGATGCTCATGTTTACAAAAACCATGTCAGGCCTCTGCAAGAGCAACTTGAGAACCCACCAAAACCTTTTCCTgtgagtataaacaaacacatgatttgctgattcttcaatcttgtttgagtttgatgaatgcataatctaccaataattctttgcaactatatgcttatttatctttgggatatttacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA