Sequence
atgc intronic sequence ATGC exonic sequenceTGTCGGTTCACACATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGGATGTCTTGgtgagtgagacatgcatctcaaagctatatctttcatgtgaaaatatcatggactagccggacttaacgagggaggaaaatggtgattgtggggaaaatg...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G21930.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G21930.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA06G05890.1 (Glycine max), 5'ss of exon 10
TGTCGGTTCACACATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGGATGTCTTGgtgagtgagacatgcatctcaaagcta-tatctttcatgtgaaaatatcatggactagccggacttaacgagggag-gaaaatggtgattgtggggaaaatg--
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TGTAGGATCACACATATTTCCTGATGTTTTGCTCAACGATATTGCTGGCCCAGAAGGAGATCCTTTGTTGTTGAGTTTAAAACTATCCGTAGATGTTTTGgtgagaatgaa--gcaccccctttttactggctttcagcttctgttgt--tggttaggacgtgcttgacaaaaccttgcatgtgctttttttctgatgagtctt
upper sequence: AT5G21930.2 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv04s0008g01960.t01 (Vitis vinifera), 5'ss of exon 10
TGTCGGTTCACACATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGGATGTCTTGgtgagtgagacatgcatctcaaagc-tatatctttca--tgtgaaaatatcatggactagccggacttaacgagggaggaaaatggtgattgtggggaaaatg
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CCTAGGCACACACATCTTTCCAGATGTATTGTTCAATGATATTGCTGGACCAGATGGAAATCCTTTGCTTTTGAGCTTGAAACTTTCTGTGGATGTTTTGgtgagtaatagggaaatgatgagccgtttaccaataaaatttaaaaggaaattttccttttttttttatatttttccttaattttggaattttgtggcct---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|124788609|gb|EH878288.1|EH878288EST: CTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGGATGTCTTG GTAGTTTCCTG
genomic: CTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGGATGTCTTGgtgagtgaga ... tgtgtatcagGTAGTTTCCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGTCGGTTCACACATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGGATGTCTTGgtgagtgagacatgcatctcaaagctatatctttcatgtgaaaatatcatggactagccggacttaacgagggaggaaaatggtgattgtggggaaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG