Sequence
atgc intronic sequence ATGC exonic sequencegttagtccaaacttttcagtttccaccatatcacactcagttctaaaaaggttgattctagtgaattgattacatttgctttttggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G61850.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G61850.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GRMZM2G451672_T01 (Zea mays), 3'ss of exon 9
gttagtccaaacttttcagtttccaccatatcacactcagttctaaaaaggttgattctagtgaattgattacatttgctttttggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT
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--------gtatctttcacatgcttcagcattttctttgtttct-----ggtttatagttatgagcctgtgacacaaaactactgttgc-----agTTGGCAGAATGATGTATTTGTGGTTGCTGAACCCGGAGAACTTGCAGACAGATTTCTGCAATCTGTCAAAACTAGCTTGTCAACCTTGTTGCGTGGGCGT
upper sequence: AT1G61850.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA17G01850.1 (Glycine max), 3'ss of exon 15
---gttagtccaaacttttcagtttccaccatatcacactcagttctaaaa---aggttgattctagtgaattgattacatttgct-ttttggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT
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gtatctgctactatgctactatgtttcatgaactcctattcattgtcaatagttatttttgcccgtgtggatggaagcctgatgctattgtccttttatttagTTGGCACAATGATGTATTTGTTGTGGCTGAACCTGGAGAGCTCGCTGAGAAATTTCTACAAAATGTTAAATTCAGTTTGTTGTCAACAATGAGGAGCCAT
upper sequence: AT1G61850.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA07G38890.1 (Glycine max), 3'ss of exon 14
--gttagtccaaacttttcagtttccaccatatcacactcagttctaaaaaggttgattctagtgaattgattacatttgctttt-tggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT
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gtatttgctacaatgtttcatgaactcctat-tcattgccaat---agttatttttgtccgtgtggatggaagcctgatgctattgtccttttatttagTTGGCACAATGATGTATTTGTTGTGGCTGAACCTGGAGAACTCGCTGAGAAATTTCTGCAAAATGTTAAATTCAGTTTGTTGTCAACAATGAGGAGCCAT
upper sequence: AT1G61850.2 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv10s0116g00830.t01 (Vitis vinifera), 3'ss of exon 15
gttagtccaaacttttcagtt--tccaccatatcacactcagttctaa--aaaggttgattctagtgaattgattacatttgctttttggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT
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------gtgaactttccccttggttcttcatgttctattctcctgttattatagcttcattcttaatcgtgacctgc--ctggtgtttg-ttccttttagTTGGCAAAAGGATGTATTTGTGGTTGCGGAACCTGGGGAACTCGCTGATAAGTTTCTACAAAGTGTTAAGTTTAGCTTGTTATCAGTGATGCGGGCCCATMapped 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|125044425|gb|EL116694.1|EL116694EST: TCTCTCACTTCAAAATGATTCTAATGGTTCAATACTGAG TTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAA
genomic: TCTCTCACTTCAAAATGATTCTAATGGTTCAATACTGAGgttagtccaa ... tttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctaaaaaggttgattctagtgaattgattacatttgctttttggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT
tttcattt CT-rich tract
aattgattacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtccaaacttttcagtttccaccatatcacactcagttctaaaaaggttgattctagtgaattgattacatttgctttttggtttcatttagTTGGCAAAATGATGTATTTGTGGTTGCTGAACCTGGAGATCTAGCTGATAAGTTTCTCCAAAGCGTCAAAGTCAGTATATTGTCAGTCATGCAAAGTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG