Sequence
atgc intronic sequence ATGC exonic sequenceGAGATCAGATGGGCCTCCTCTTGATTGGAACACTAGAATGAAGATTGCACTATGCGCAGCTCAGGGTCTAACCTTCTTGCACGAAGAAGGCCCTTTTCAGgtacgctaaacaaaactccatcaacatttgtgaatttgggtggtaacaaggtttgttgtgattgagcccttttcttcctctgtatgaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G08760.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G08760.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA18G44630.1 (Glycine max), 5'ss of exon 2
GAGATCAGATGGGCCTCCTCTTGATTGGAACACTAGAATGAAGATTGCACTATGCGCAGCTCAGGGTCTAACCTTCTTGCACGAAGAAGGCCCTTTTCAGgtacg-cta-aacaaaactccatcaacatttgtgaatttgggtggtaacaa-----ggtttgttgtgattg-------agcccttttcttcctctgtatgaacag-------------------
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-AGATCTGATGGGCCATCAATTGATTGGAATACAAGAATGAAAATTGCTATATGTGCTGCACAAGGTCTAACCTTCTTGCACGAAGAGGGGCCTTTTCAGGtacaactataataacactttgttttgtttttcatagtatggagcgaatgatttcaagtatgttatgattattaggttaattatacactttatctttgctgacatccttctttctgcttgtagg
upper sequence: AT3G08760.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G41160.1 (Glycine max), 5'ss of exon 3
GAGATCAGATGGGCCTCCTCTTGATTGGAACACTAGAATGAAGATTGCACTATGCGCAGCTCAGGGTCTAACCTTCTTGCACGAAGAAGGCCCTTTTCAGgtacgctaaacaaaactccatcaacatttgtgaatttgggtggtaacaaggtttgttgtgattgagcccttttcttcctctgta-tgaacag-----------
||||| |||||||| | |||||||||| || |||||||| ||||| |||| || || || |||||||| |||||||| |||||||| ||||||||||||| || | || || || | | || || | || | | | |||| | | | || | | | |||
AAGATCTGATGGGCCATCAATTGATTGGAATACAAGAATGAAAATTGCTATATGTGCTGCACAAGGTCTAACTTTCTTGCATGAAGAAGGGCCTTTTCAGgtac---aactataataacaataataatagtcttattccattgtgaggtcggctacatagattatacgatgtcattggattagactaaaccaaattcttagga
upper sequence: AT3G08760.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv08s0058g01290.t01 (Vitis vinifera), 5'ss of exon 3
GAGATCAGATGGGCCTCCTCTTGATTGGAACACTAGAATGAAGATTGCACTATGCGCAGCTCAGGGTCTAACCTTCTTGCACGAAGAAGGCCCTTTTCAGgtacgctaaacaaaactccatcaacatttgtgaatttgggtggtaacaaggtttgttgtgattgagcccttttcttcctctgtatgaacag-------------
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GAGATCGGATGGGCCATCCATTGATTGGAACACAAGAATGAAAGTTGCTTTATGTGCTGCACAGGGTCTCACTTTCTTGCATGAAGAAGGGCCTTTCCAGgtaagctgaa--atcctgtctctgttcttttgaag--gattaaaattgaaatagatggtacatgatcccccacatggtcaactagtaacacttctcagtttatgMapped 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|86060826|gb|DR356583.1|DR356583EST: TATGCGCAGCTCAGGGTCTAACCTTCTTGCACGAAGAAGGCCCTTTTCAG GCAATGTACAATGAATTTTCGACGGCAAATATCCAAGTCGATAAAGATTTC
genomic: TATGCGCAGCTCAGGGTCTAACCTTCTTGCACGAAGAAGGCCCTTTTCAGgtacgctaaa ... gtatgaacagGCAATGTACAATGAATTTTCGACGGCAAATATCCAAGTCGATAAAGATTTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGATCAGATGGGCCTCCTCTTGATTGGAACACTAGAATGAAGATTGCACTATGCGCAGCTCAGGGTCTAACCTTCTTGCACGAAGAAGGCCCTTTTCAGgtacgctaaacaaaactccatcaacatttgtgaatttgggtggtaacaaggtttgttgtgattgagcccttttcttcctctgtatgaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG