Sequence
atgc intronic sequence ATGC exonic sequencegtaagtacagccaccactttcctattgtatccctttttcttgagatttctgtagaataccaactaatgaatctttatttacagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATATACGTCGGTACAGGTTGTGTTTTCAGGAGGCAAGCGCTTTACGGATTTGATGCACCGAAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G64740.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G64740.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA08G15380.1 (Glycine max), 3'ss of exon 10
gtaagtacagccaccacttt------cctattgtatccctttttcttgagatttctgtagaataccaactaatgaatctttattt----acagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATATACGTCGGTACAGGTTGTGTTTTCAGGAGGCAAGCGCTTTACGGATTTGATGCACCGAAGA
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gtaagttttctcttcctctttttttgcttgtttgactgcttttctttcag--tcctttaatatggcaactactaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACTGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
upper sequence: AT5G64740.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 10
gtaagtacagcca-ccactttcctat-----tgtatccctttttcttgagatttctgtagaataccaactaatgaatctttattt----acagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATATACGTCGGTACAGGTTGTGTTTTCAGGAGGCAAGCGCTTTACGGATTTGATGCACCGAAGA
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gtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctt-tagtatggcagcttctaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCAMapped 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|124914824|gb|EH988698.1|EH988698EST: GGATTGATAGGCACGANCGATACTCAAATCGCAATGTTGTGTTCTTTGAT ATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATA
genomic: GGATTGATAGGCACGATCGATACTCAAATCGCAATGTTGTGTTCTTTGATgtaagtacag ... ttatttacagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccctttttcttgagatttctgtagaataccaactaatgaatctttatttacagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATATACGTCGGTACAGGTTGTGTTTTCAGGAGGCAAGCGCTTTACGGATTTGATGCACCGAAGA
aactaat putative branch site (score: 2)
tctttattt putative PPT
taatgaatctttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtacagccaccactttcctattgtatccctttttcttgagatttctgtagaataccaactaatgaatctttatttacagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATATACGTCGGTACAGGTTGTGTTTTCAGGAGGCAAGCGCTTTACGGATTTGATGCACCGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA