Sequence
atgc intronic sequence ATGC exonic sequenceGGTTATGCTTGTGGGTTTGGGAGGAAACAATGGATCAACTCTCACCGCTGGTGTGATTGCGAACAAAGAgtgagtctttttgatcaagtccttgatattaaaatttgataattttgtctttttgtaatcggaaaattggataaataaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G39800.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G39800.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA05G31450.2 (Glycine max), 5'ss of exon 2
GGTTATGCTTGTGGGTTTGGGAGGAAACAATGGATCAACTCTCACCGCTGGTGTGATTGCGAACAAAGAgtgagtctttttgatcaagtcc---ttgatattaaaatttgataattttgtcttt---ttgtaatcgg---aaaattggataaataaaacag-----------------------
||| ||||||||||| | ||| ||||||||||| ||||| ||||||| |||||| ||||| ||| ||||| ||| | | | | | || | || ||||| || | || | | | | ||||| | |||||| | | |
GGTAATGCTTGTGGGGTGGGGTGGAAACAATGGCTCAACCCTCACCGGTGGTGTTATTGCTAACCGAGAgttagtttcatcttcctaaccaatattaacgttttaatttattattattatttgtggctagtaatggctttaaaatttaagggtgatcatgtatgttgtgattctcacttctcag
upper sequence: AT4G39800.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA18G02210.2 (Glycine max), 5'ss of exon 2
GGTTATGCTTGTGGGTTTGGGAGGAAACAATGGATCAACTCTCACCGCTGGTGTGATTGCGAACAAAGAgtgagtctttttgatcaagtccttgatattaaaatttgataattttgtctttttgtaatcggaaaattggataaataaaacag---------------
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GGTGATGCTTGTGGGTTGGGGTGGAAACAACGGCTCTACCCTCACCGGTGGTGTTATTGCTAACAGAGAgttagtttcgatttcttagcctctgtcttttggtattattaagaggaaccttgtgttatttatttat-gggtcatttttgtattttatgatttctcag
upper sequence: AT4G39800.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv07s0031g00920.t01 (Vitis vinifera), 5'ss of exon 2
GGTTATGCTTGTGGGTTTGGGAGGAAACAATGGATCAACTCTCACCGCTGGTGTGATTGCGAACAAAGAgtgagtctttttgatcaagtcct--------tgatattaaaatttgataattttgtctttttgtaatcgg-aaaattggataaat-----aaaacag-------------------------------------
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GGTTATGCTTGTGGGTTGGGGAGGAAACAACGGCTCATCTCTCACTGGTGGTGTAATTGCCAATCGGGAgtgagtttcttcgttcttgccctgctttgctccatacttgtttaaaaaaaaaaaaaaactgtttggttggtgagatttgttgatttttttaaaatgatttttaattttgagaagtgggtcatgcattttatcagMapped 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|47829323|gb|CK119007.1|CK119007EST: ATTGCGAACAAAGA AGGAATCTCGTGGGCAACGAAGGACAAAGTGCAACAAGCGAATTACTTCGG
genomic: ATTGCGAACAAAGAgtgagtcttt ... aataaaacagAGGAATCTCGTGGGCAACGAAGGACAAAGTGCAACAAGCGAATTACTTCGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTTATGCTTGTGGGTTTGGGAGGAAACAATGGATCAACTCTCACCGCTGGTGTGATTGCGAACAAAGAgtgagtctttttgatcaagtccttgatattaaaatttgataattttgtctttttgtaatcggaaaattggataaataaaacag
- - - - - - - - - GGAGGA