Sequence
atgc intronic sequence ATGC exonic sequencegtttgtaaactcaactacagattaaagccaaaataaagttttttacataaaatttaccatttacgaattgtattttacagGTTTTGAACCCTTTAGAGACACAACTTATACCAGCGATGTGAACTGGGGTTGCATGATTCGAAGTAGCCAGATGCTTTTTGCTCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44140.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44140.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G173682_T01 (Zea mays), 3'ss of exon 1
------gtttgtaa-actcaactacagattaaagccaaaataaagttttttacat-----aaaatttaccatttacgaattgtattttacagGTTTTGAACCCTTTAGAGACACAACTTATACCAGCGATGTGAACTGGGGTTGCATGATTCGAAGTAGCCAGATGCTTTTTGCTCAG
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gttaagctttgcaggactgcgcttgtggtgaaaacttgttttcgtgtgcacgggtgcctagaagctaagtattgacatgcttattgtcccagGGTTTGATGCAATACCTGGTTCCAAGCTCACTAGTGATGTGAACTGGGGATGCATGGTTAGAAGTAGTCAGATGCTGGTTGCTCAG
upper sequence: AT2G44140.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv00s0215g00030.t01 (Vitis vinifera), 3'ss of exon 3
-------------------gtttgtaaactcaactacagattaaagccaaaataaagttttttacataaaatttaccatttacgaattgtattttacagGTTTTGAACCCTTTAGAGACACAACTTATACCAGCGATGTGAACTGGGGTTGCATGATTCGAAGTAGCCAGATGCTTTTTGCTCAG
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gtgcttcacatgtaaaatggtgctttctttcttcttcttattgttatta--gttgtattgctcacctgttgctt-ctctctctatccttgattttatagGTTTTGAGGCTATTGGGGATTCAAAGTTAACTAGTGATGTGAATTGGGGTTGCATGCTTCGAAGTAGTCAGATGCTTGTTGCACAGMapped 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|164225048|gb|ES166914.1|ES166914EST: TGCATTGCAACTAGATTTTTCATCCAAAATACTGATGACATATCGTAAAG GTTTTGAACCCTTTAGAGAC
genomic: TGCATTGCAACTAGATTTTTCATCCAAAATACTGATGACATATCGTAAAGgtttgtaaac ... tattttacagGTTTTGAACCCTTTAGAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agccaaaataaagttttttacataaaatttaccatttacgaattgtattttacagGTTTTGAACCCTTTAGAGACACAACTTATACCAGCGATGTGAACTGGGGTTGCATGATTCGAAGTAGCCAGATGCTTTTTGCTCAG
aaataaagttttttac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtaaactcaactacagattaaagccaaaataaagttttttacataaaatttaccatttacgaattgtattttacagGTTTTGAACCCTTTAGAGACACAACTTATACCAGCGATGTGAACTGGGGTTGCATGATTCGAAGTAGCCAGATGCTTTTTGCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG