Sequence
atgc intronic sequence ATGC exonic sequence...agtgctctttctctgttctttcatttgcaacattgttctgtggttttactgcatcctctgctctgctttgaggtcactcatcaccatgttttgctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTTATTGCTCTCTCTGGCCACGAGAATGTTGTTCAGTTTCACAATGCCTTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G66210.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA16G23870.1 (Glycine max), 3'ss of exon 3
--agtgctctttctctgttctttcatttgcaacattgttctgtggtt----ttactgcatcctctgctctgctttgaggtcactcatca-ccatgtttt------gctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTTATTGCTCTCTCTGGCCACGAGAATGTTGTTCAGTTTCACAATGCCTTTG
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gtatttccgttaatgccatcgtcgttttgctcctaaatcttataattcaattcatcgtgtttttgtttgtagtttttaggaattaattagttatgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACTGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTG
upper sequence: AT5G66210.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 1
---------------agtgctctttctctgttctttcatttgcaacattgttctgtggt---tttactgcatcctctgctctgctttgagg-tcactcatca-ccatgtttt------gctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTTATTGCTCTCTCTGGCCACGAGAATGTTGTTCAGTTTCACAATGCCTTTG
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gtatttatttccgtcaatgccatcggcgttcgttttggtccttaatcttataatgttttcaattcatcgtgttttgtttgtaattttaggaattattaattagttgtgctttaaatttggtggcagATGGTTCTGCCTATTGCCGTTGAGGATGTTAAGCGAGAGGTCAAGATATTGAAAGCACTTACCGGCCATGAGAATGTGGTTCAGTTCTATAATGCTTTTGMapped 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|152035215|gb|BP847842.2|BP847842EST: ACAGACCCAATGGAGATCGCGTCGCCGTCAAAAGACTCGATAAGTCTAAG ATGGTTCTTC-TATTGCTGTGGAGGATGTCAAGCGTGAGGTTCAGATTCTT
genomic: ACAGACCCAATGGAGATCGCGTCGCCGTCAAAAGACTCGATAAGTCTAAGgtacactttt ... ttgctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactgcatcctctgctctgctttgaggtcactcatcaccatgttttgctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTTATTGCTCTCTCTGGCCACGAGAATGTTGTTCAGTTTCACAATGCCTTTG
ttttgctc CT-rich tract
atgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtgctctttctctgttctttcatttgcaacattgttctgtggttttactgcatcctctgctctgctttgaggtcactcatcaccatgttttgctcacagATGGTTCTTCCTATTGCTGTTGAGGATGTCAAGCGTGAGGTTCAGATTCTTATTGCTCTCTCTGGCCACGAGAATGTTGTTCAGTTTCACAATGCCTTTG
- - - - - - ctgttct
- - - - - - - - - - - - - - - - - - - - -ggtttta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catcacc