Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatctttagacggtcctgaagtgaaaaaccaaatctatagcctgctttttcacggactgactggttttatattgtagTGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAGCAACGTGCATATGAGCTTCAGGCTCTCCTTGCTCTAGATGCCCGTGCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G31730.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G031352_T01 (Zea mays), 3'ss of exon 8
--------------------gtatgtatctttagacggtcctgaagtgaaaaaccaaatctatagcctgctttttcacggactgactggttttatattgtagTGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAGCAACGTGCATATGAGCTTCAGGCTCTCCTTGCTCTAGATGCCCGTGCTG
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tgtactaagaagtcacaaaaggataacttcattgtggatttgatagcgttttttggtttctataaa-tatatatatgtatatacattctctct-tcttgcagTGTCAAACATTGGTAGATGAATTGTTAGCTTCACATTCAACAGACCTGCAGCAACGGGCATACGAGCTACATGCTTTACTAGGCTTGGGCAAAAATGATG
upper sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA01G35650.1 (Glycine max), 3'ss of exon 8
---------------------gtatgtatctttagacggtcctgaagtgaaaaaccaaatctatagcctgctttttcacggactgactggttttatattgtagTGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAGCAACGTGCATATGAGCTTCAGGCTCTCCTTGCTCTAGATGCCCGTGCTG
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ctaaaaaaaatgaaattcctgtcatagtttactagtttatgctaaat--atgattcatgtcttta-ttggtatgaatagtaactctttcttgtctacttgcagTGCCAATCGTTGATTGAAGAATCATTGGCATCACACTCTACAGATTTGCAGCAACGTGCTTATGAATTGCAAGCTCTTATAGGTTTGGATGTACAAGCTG
upper sequence: AT1G31730.1 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA09G35240.1 (Glycine max), 3'ss of exon 8
---------gtatgtatctttagacggtcctgaagtgaa----aaaccaaatctatagcct-gctttttcacggactgactggtttt---ata-ttgtagTGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAGCAACGTGCATATGAGCTTCAGGCTCTCCTTGCTCTAGATGCCCGTGCTG
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aaataaaaataaaatttcctgtcatagtttaccagtttatgctaaatatggttcatgcctttattggtatgaagagtaactctttcttgtctacttgcagTGCCAATCGTTGATTGAAGAATTATTGGCATCCCACTCTTCAGATCTGCAGCAACGTGCTTATGAATTGCAAGCCTTTATAGGTTTGGATGTACAAGCTGMapped 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|47832297|gb|CK121981.1|CK121981EST: TCTACGCATTTGAAATTGCATCTGGGAGAAAGGTGGATGTTTTGCCAGAG TGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAG
genomic: TCTACGCATTTGAAATTGCATCTGGGAGAAAGGTGGATGTTTTGCCGGAGgtatgtatct ... tatattgtagTGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaaaaccaaatctatagcctgctttttcacggactgactggttttatattgtagTGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAGCAACGTGCATATGAGCTTCAGGCTCTCCTTGCTCTAGATGCCCGTGCTG
gactgac putative branch site (score: 2)
ttttatattgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatctttagacggtcctgaagtgaaaaaccaaatctatagcctgctttttcacggactgactggttttatattgtagTGCCAATCTTTGATTGAAGAGCTATTGGCTTCACATTCAACAGATCTTCAGCAACGTGCATATGAGCTTCAGGCTCTCCTTGCTCTAGATGCCCGTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT