Sequence
atgc intronic sequence ATGC exonic sequenceACTTGGCAAAAACAATGCCCCGATGGTGCTTCCTGATAAAGTTATTGTTGTATGCTCTGGAGTTGAAGGCATATATTTTCCAAGCCTTCATTTgtaagctgtcaccatgtgatcactatttcacattgtcttaacttttcctgcctactaattactctagaactggccaaagcaaagacctttttgattgattgatagagttttcttacttcgtttggtttatctacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G53430.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G53430.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA04G41500.1 (Glycine max), 5'ss of exon 9
ACTTGGCAAAAACAATGCCCCGATGGTGCTTCCTGATAAAGTTATTGTTGTATGCTCTGGAGTTGAAGGCATATATTTTCCAAGCCTTCATTTgtaagctgtcaccatgtgatcactatttcacattgtcttaacttttcctgcctactaattactctagaactggccaaagcaaagacctttttgattgattgatagagttttcttacttcgtttggtttatctacag
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GTGGAGCAAAAACAATGGGCAGCTAGTGCTTCCAAATAGGGTCACTGTTCTCTGCAATGGTGTTGAAGGCATATATTTTCCAAGCCTTCATTTgtaagcacaaagtccttccgaagaatttgacataaa---aaatttctctgttg--tgactatcatagtttta-ttaacttgttaatttttaaaattgtca---agagtt---------------------------
upper sequence: AT5G53430.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 5'ss of exon 9
ACTTGGCAAAAACAATGCCCCGATGGTGCTTCCTGATAAAGTTATTGTTGTATGCTCTGGAGTTGAAGGCATATATTTTCCAAGCCTTCATTTgtaagctgtcaccatgtgatcactatttcacattgtcttaacttttcctgc-ctactaattactctagaactggccaaagcaaagacctttttgattgattgatagagttttcttacttcgtttggtttatctacag
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ATGCAACAAAAACAACAGTCAATTAGTGCTGCCTAACAAGGTTACAGTTACTTGCTCGGGTGTGGAAGGCATATATTTCCCAAGCATTCATTTgtaagcatcaataattttgtg--taggctatatctccttgctttttaatacattacttatttacctatcaaaaaaaaaaaaaaaaattgtgtaggctg--caat---------------------------------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|164026333|gb|ES175886.1|ES175886EST: ATTGTTGTATGCTCTGGAGTAGAAGGCATATATATTCCAAGCCTTCATTT AGTCGTATGTAAGTGTGGATCTTGTGGACCTGAAAGGAAAGCACTTA
genomic: ATTGTTGTATGCTCTGGAGTTGAAGGCATATATTTTCCAAGCCTTCATTTgtaagctgtc ... ttatctacagAGTCGTATGTAAGTGTGGATCTTGTGGACCTGAAAGGAAAGCACTTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACTTGGCAAAAACAATGCCCCGATGGTGCTTCCTGATAAAGTTATTGTTGTATGCTCTGGAGTTGAAGGCATATATTTTCCAAGCCTTCATTTgtaagctgtcaccatgtgatcactatttcacattgtcttaacttttcctgcctactaattactctagaactggccaaagcaaagacctttttgattgattgatagagttttcttacttcgtttggtttatctacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG