Sequence
atgc intronic sequence ATGC exonic sequenceCAGATCAGAGAGAGACTACTGTTGTTTGGAGCAAATCCACTGGCCTTCCTCTCCACAAGGCTATTGTCTGGATGGATGCTCGTACCAGCTCCATCTGCAGgtacataactttcattgatctctttcttttcttcttgtatggtttgtctactatcatcttcaggattgctgagggatttggtttctgatgaaagctttctttggtgatccttaattacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G80460.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G80460.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os04g55410.1 (Oryza sativa), 5'ss of exon 2
CAGATCAGAGAGAGACTACTGTTGTTTGGAGCAAATCCACTGGCCTTCCTCTCCACAAGGCTATTGTCTGGATGGATGCTCGTACCAGCTCCATCTGCAGgtacataactttcattgatctctttcttttcttcttgtatggtttgtctactatcatcttca-ggattgctgagggatttggtttctgatgaaagctttctttggtgatccttaattacag
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CAAATCAGAGGGAAACCACTGTTATGTGGAGCAAATCCACAGGCCTTCCTCTATACAATGCCATTGTATGGATGGATGCTCGCACAAGCCCCATTTGCAGgt------cttccctttgtc-catcatgtttgacatatcagtgttatatagtgcagttttctcataatgtttgacctttcag---------------------------------------
upper sequence: AT1G80460.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G023163_T01 (Zea mays), 5'ss of exon 2
CAGATCAGAGAGAGACTACTGTTGTTTGGAGCAAATCCACTGGCCTTCCTCTCCACAAGGCTATTGTCTGGATGGATGCTCGTACCAGCTCCATCTGCAGgtacataactttcattgatctctttcttttcttcttgtatggtttgtctactatcatcttcaggattgctgagggatttggtttctgatgaaagctttctttggtgatccttaattacag
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CAAATCAGAGGGAAACCACTGTTATGTGGAGTAAATCCACTGGCCGTCCACTGTATAATGCTATTGTGTGGATGGATGCTCGCACAAGCCCTGTTTGCAGgtcgccttctttttatcattcactcgttttattaacattcgat--atcatcaaatcttctcatcatgcttcaacaacacag---------------------------------------
upper sequence: AT1G80460.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA07G03230.1 (Glycine max), 5'ss of exon 1
CAGATCAGAGAGAGACTACTGTTGTTTGGAGCAAATCCACTGGCCTTCCTCTCCACAAGGCTATTGTCTGGATGGATGCTCGTACCAGCTCCATCTGCAGgtacataactttcattgatctctttcttttcttcttgtatggtttgtctactatcatcttcaggattgctgagggatttggtttctgatgaaagctttctttggtgatccttaattacag
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CCAATCAGAGAGAGACCACTCTCCTCTGGAGCAAATCCACCGGCCTCCCTCTTCACAACGCCATTGTTTGGATGGATGCTCGCACTTCTTCCATTTGCAGgt---caactattcattttctcaactttgcatcaatgttttttacttttgttagaaatctc-----tatcccagaattcaaaccccaacatctcccttctcct-tcacc-----------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|86077171|gb|DR372928.1|DR372928EST: CTCCACAAGGCTATTGTCTGGATGGATGCTCGTACCAGCTCCATCTGCAG GAGACTAGAGAAAGAACTCTCGGGAGGAAGATCCCATTTTGTGGAGTCTTG
genomic: CTCCACAAGGCTATTGTCTGGATGGATGCTCGTACCAGCTCCATCTGCAGgtacataact ... ttaattacagGAGACTAGAGAAAGAACTCTCGGGAGGAAGATCCCATTTTGTGGAGTCTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAGATCAGAGAGAGACTACTGTTGTTTGGAGCAAATCCACTGGCCTTCCTCTCCACAAGGCTATTGTCTGGATGGATGCTCGTACCAGCTCCATCTGCAGgtacataactttcattgatctctttcttttcttcttgtatggtttgtctactatcatcttcaggattgctgagggatttggtttctgatgaaagctttctttggtgatccttaattacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG