Sequence
atgc intronic sequence ATGC exonic sequenceTAACTTCTTATACAATGAAGCCACAAAGACAATAAATCTTATCGATTTCGGAGCAGCTCGTGATTACCCCAAGAAATTCGTCGATGACTATCTACGAATGgtaaaacaatcttaccgattcctctttttcgctttcacatagtaaagaattctgaaaattgaacattttatggaattctttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G01660.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G01660.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA10G27970.1 (Glycine max), 5'ss of exon 9
TAACTTCTTATACAATGAAGCCACAAAGACAATAAATCTTATCGATTTCGGAGCAGCTCGTGATTACCCCAAGAAATTCGTCGATGACTATCTACGAATGgtaaaa---caatcttaccgattcctctttttcgctttcacatagtaaagaattctgaaaattgaacattttatggaatt-ctttttcag----------
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TAATTTCTTATTTGATGAAGCTACAAAGACAATCAATCTGATTGATTTTGGAGCAGCACGTGATTACCCTAAAACATTTGTTGATGATTATTTAAGAATGgttggttctcttcctttcaaatttatctctttatatcaataactatgctgaggtttgaaatcttcattttttattgtttcacctgtttaatttttatgtt
upper sequence: AT4G01660.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv07s0005g02430.t01 (Vitis vinifera), 5'ss of exon 7
TAACTTCTTATACAATGAAGCCACAAAGACAATAAATCTTATCGATTTCGGAGCAGCTCGTGATTACCCCAAGAAATTCGTCGATGACTATCTACGAATGgtaaaacaatcttaccg-attcctctttttcgctttcacatagtaaagaattctgaaaattgaacattt-tatggaattctttttcag-------------
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TAACTTCTTATATGATGATGCCACAAGAACAATAAATCTCATAGACTTTGGAGCTGCTCGAGATTACCCTAAAAGATTTGTTGATGACTATTTAAGAATGgtaacttctttttgcttcatattttagtttctttttggcactttgtc-aactatcattttctattatttctgtggcatacatccaaatgaaggttgcagatMapped 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|124873087|gb|EH954732.1|EH954732EST: AGCAGCTCGTGATTACCCCAAGAAATTCGTCGATGACTAATCTACGAATG GTGATGGCATGTGCA
genomic: AGCAGCTCGTGATTACCCCAAGAAATTCGTCGATGACTA-TCTACGAATGgtaaaacaat ... tctttttcagGTGATGGCATGTGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAACTTCTTATACAATGAAGCCACAAAGACAATAAATCTTATCGATTTCGGAGCAGCTCGTGATTACCCCAAGAAATTCGTCGATGACTATCTACGAATGgtaaaacaatcttaccgattcctctttttcgctttcacatagtaaagaattctgaaaattgaacattttatggaattctttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA