Sequence
atgc intronic sequence ATGC exonic sequencegtaaataaagacatcatgttcttatgagactgaaaagtatggtttgagttttaggaatctcttaaaacttttttttttgttctctttctggatatgaaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G01450.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G01450.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os06g49430.2 (Oryza sativa), 3'ss of exon 6
gtaaataaagacatcatgttcttatgagactgaaaagtatggtttgagttttaggaatctcttaaaacttttttttttgttctctttctggatatgaaa------cagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG
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---------------------gtacaaagcaatagctcaagtttcctgctttgtgttaataataaaattttcagcttttcaagattgataattatgaaatgcaaacagATTTTGGAGTATCACCCACAGATGCTGCAAGAGTATATGAAAGGTGGAGAGCAGATTAGCTTCCTCTATCCAAG------
upper sequence: AT2G01450.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G135904_T01 (Zea mays), 3'ss of exon 7
gtaaataaagacatcatgttcttatgagactgaaaagtatggtttgagttttaggaatctcttaaaacttttttttttgttctctttctggatatg-aaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG
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gtaatgagcaatagcttctaatctattttcctgtttgtgtaaac-aagtgtagtcaccgtgcttgagaattattattatttgtctat---aatacgcgagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGTACATGAAAGGCGGAGAACAGATTAGCTTCCTCTATCCAAG------
upper sequence: AT2G01450.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G306028_T02 (Zea mays), 3'ss of exon 7
gtaaataaagacatcatgttcttatgagactgaaaagtatggtttgagttttaggaatctcttaaaacttttttttttgttctctttctgg--atatg-aaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG
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--gtatggag-caacaacttctaatatattt------tcctgtttgtgtaaaaaaaagtatagtcactgtgtttgaaaattatttttttaataatatgcaagcagATTTTGGAGTATCATCCACAGATGCTGGAGGAGCACATGCAAGGTGGAGAACAGATTAGCT------TCCTCTACCCGAG
upper sequence: AT2G01450.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: AC216880.3_FGT007 (Zea mays), 3'ss of exon 1
gtaaataaaga-catcatgttcttatgagactgaaaagtatggtttgagttttaggaatctcttaaaacttttttttttgttctctttctg-gatatg-aaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG--------------------
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----gtaatgagcaatagcttctaatct-attttcctgtttg-tgtaaacaagtgcagtcaccatgcttgagtattattattatttgtctataatacgcaagcagATTTTGGAGTATCATCCAGAGATGTTGGAGGAGTACATGAAAGGCGGAGAACAGATTAACTTCTTCTATTTGAAAAAATCATCCCTTCTGGCATGGGTACMapped 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|164089898|gb|ES029766.1|ES029766EST: AGAGGAGGAAATTGACTCGCGATGACGTGAGGGAACTCATGTACAGAGAG ATTT-GGAGTATCATCCACAGATGTTGCA
genomic: AGAGGAGGAAATTGACTCGCGATGACGTGAGGGAACTCATGTACAGAGAGgtaaataaag ... tatgaaacagATTTTGGAGTATCATCCACAGATGTTGCA
EST:
gi|125209780|gb|EL224734.1|EL224734EST: AGGAGGAAATTGACTCGCGATGACGTGAGGGAACTCATGTACAGAGAG ATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGA
genomic: AGGAGGAAATTGACTCGCGATGACGTGAGGGAACTCATGTACAGAGAGgtaaataaag ... tatgaaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttaggaatctcttaaaacttttttttttgttctctttctggatatgaaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG
aatctcttaaaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaataaagacatcatgttcttatgagactgaaaagtatggtttgagttttaggaatctcttaaaacttttttttttgttctctttctggatatgaaacagATTTTGGAGTATCATCCACAGATGTTGCAAGAGTATCTACAAGGAGAAGAGAACATAAACTCTCATTTTCTATACCCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA