Sequence
atgc intronic sequence ATGC exonic sequence...aattgagtggataatttccacttctctgttatactttttttttttttttttcctaatcccttcttggcttcttctaatgtttttgttctgattgtattagGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGTGCTCCACAATTGATTACAATTGGGGCTGACAAGACATTGGCCATATGGG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G24710.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G24710.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g46510.2 (Oryza sativa), 3'ss of exon 7
---------------aattgagtggataatttccacttctctgttatact--ttttttttttttttttcctaatcccttcttggcttcttctaatgtttttgttctgattgtatta-gGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGTGCTCCACAATTGATTACAATTGGGGCTGACAAGACATTGGCCATATGGG
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gtagcacttttttgcatatgcatatgtttttgttctttcactatcatcttaatagcattgcctaacagttcagcacatatcttggttaacctaatttgttttatgtgtcttcctcaagGCTCATGATGGAGGTGTAGTTGCAGTTGAACTTTCACGGGTAATGGGAAGTGCTCCACAACTCATTACAATAGGGGCTGACAAAACTTTAGCCATATGGG
upper sequence: AT5G24710.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G000177_T01 (Zea mays), 3'ss of exon 7
-------------------------------------------aattgagtggataatttccacttctctgttatactttttttttttttttttcctaatcccttcttggcttcttctaatgtttttgttctgattgtattagGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGTGCTCCACAATTGATTACAATTGGGGCTGACAAGACATTGGCCATATGGG
| | | | || | ||||| | || || | || | || | | || | | |||||||| | || |||| |||||||| || || || || ||||| || |||||||| | |||||||||||||| | |||||||| |||||||| || || || ||||||||||
gtattgacttgctgacttcagttcaccgattatttatgtatcagaaaaaataaaatgttgcagaacgtctgtaaa--ttacttgtacaacattacttagcatgcgagtaggttaat--actgtttttggggtattttctcaagGCCCATGATGGAGGTGTAGTTGCAGTTGAACTTTCAAGGGTGATGGGGAGTGCTCCACAGCTCATTACAATAGGGGCTGATAAAACTTTAGCCATATGGG
upper sequence: AT5G24710.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G41130.2 (Glycine max), 3'ss of exon 3
aattgagtggataatttccacttctctgttatactttttttttt--tttttttcctaatcccttcttggcttcttc------taatgtttttgttc--tgattgtat-tagGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGTGCTCCACAATTGATTACAATTGGGGCTGACAAGACATTGGCCATATGGG
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-----------tctctttttctaccttattattcttttctgtatgactcatgaatgattccgtgcatggacatttcattggttaatgataccacttaatgcatctatctagGCACATGATGGAGGGGTTGTGGCAGTTGAGTTGTCAAGGGTGATGGGAGGTGCTCCTCAGCTAATCACAATTGGTGCAGATAAGACATTAGCCATATGGG
upper sequence: AT5G24710.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA03G38530.1 (Glycine max), 3'ss of exon 7
aattgagtggataatttccacttctctgttatacttttttttttttt-----ttttcctaatcccttcttggcttcttctaatgttt-----ttgttctgattgtat-tagGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGTGCTCCACAATTGATTACAATTGGGGCTGACAAGACATTGGCCATATGGG
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-----------cgccttccctttttctaccttatttttcttttctgtatgactcatgctgattccgtgcatgcacatttcattggttaatgataccacttaatgcatctagGCACATGATGGAGGGGTTGTGGCAGTTGAGTTGTCAAGGGTGATGGGAGGTGCTCCTCAGCTAATCACAATTGGTGCAGATAAGACATTAGCCATATGGGMapped 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|164205265|gb|ES090316.1|ES090316EST: CTTGTACCCAAGCTTAGCTTAAAG GCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGT
genomic: CTTGTACCCAAGCTTAGCTTAAAGgtactcaatt ... attgtattagGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttcctaatcccttcttggcttcttctaatgtttttgttctgattgtattagGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGTGCTCCACAATTGATTACAATTGGGGCTGACAAGACATTGGCCATATGGG
taatgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattgagtggataatttccacttctctgttatactttttttttttttttttcctaatcccttcttggcttcttctaatgtttttgttctgattgtattagGCACATGATGGTGGGGTGGTGGCTGTTGAGCTGTCAAGGGTAAGTGGGAGTGCTCCACAATTGATTACAATTGGGGCTGACAAGACATTGGCCATATGGG
- - - - - - - - -ccacttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtttttg