Sequence
atgc intronic sequence ATGC exonic sequenceCATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGGCTTTATCCTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaaactaatggtcacaaatcgagtcttgcaaattcaagaaagtcttttactgattttgggtcttgtttcttaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53730.2 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53730.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GRMZM2G004572_T01 (Zea mays), 5'ss of exon 15
CATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGGCTTTATCCTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaaa----ctaatggtcacaaat--cgagtcttgcaaat-tcaagaaagtcttttactgattttgggtcttgtttcttaacag----------------
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CATTGACGCCTTGGACCAGATGGTTGATCCGGCGCTCAAGGGTCTTTACCCCGCCAAATCCCTTTCCCGTTTTGCGGATGTTATTGCTCTGTGTGTCCAGgtatgaactctagcgcccacatacaacgcagttagtatacatctatacatcaaaataccagccagtagcgaagctagcaaataatttatcggggtcatca
upper sequence: AT1G53730.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA03G42360.1 (Glycine max), 5'ss of exon 17
CATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGGCTTTATCCTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaa----actaatggtcacaaatcga-gtcttgcaaattcaa---gaaagtcttttactgattttgggtcttgtttcttaacag---
|||||||| || || |||||||||||||| || | |||||||| |||||||| || || |||||||||||||| |||||||| ||||| || || |||||| | | | || |||| | ||| |||| |||| | ||| | || || || || || |
TATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGGCTATATCCTGTTAAGTCTCTTTCTCGATTTGCCGATGTTATTGCTCTTTGCGTTCAGgtactgtcagccacgttcccaaaaaattattttgtaaatatggatggaaaatgtttgtgcattcatgtgtttttatttttgggggcag
upper sequence: AT1G53730.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA19G45130.1 (Glycine max), 5'ss of exon 15
CATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGGCTTTATCCTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaaactaatggtcacaaatcgagtcttgcaaattcaagaaagtcttttactgattttgggtcttgtttcttaacag-----------------------------------------------------------------
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TATTGATGCATTGGCTAAAATGGTTGATCCTGCAATGAAAGGGTTATATCCTGTTAAGTCTCTTTCTCGATTTGCCGATGTTATTGCTCTTTGCGTTCAGgta--ctgtcagacacgttttgattcacccaaaatttattgattttgtaaatatggatggatttgggaaaccacgggggtggatgggaaatatttgtgcatggcttgttcatgtgattttttgtttatattatttggggcag
upper sequence: AT1G53730.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA16G01790.1 (Glycine max), 5'ss of exon 15
CATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGGCTTTATCCTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaa-actaatggt--cacaaatcgagtcttgcaaattca----------agaaagtcttttactgattttgggt-----cttgtttcttaacag--------------------------------------------------------------------------------------------------
|| |||||||| || |||||||||||||| || | |||| || || ||||| || ||||||||||||||||| |||||||| ||||| || || ||||||| | | || || | | | || || | || || || ||||| ||||||| ||| | || |||
TATCGATGCTTTGGCTAAAATGGTTGATCCTGCATTGGAAGGACTATACCCTGTGAAGTCCCTTTCTCGATTTGCGGATGTTATTGCTCTATGCGTTCAGgtaatgtcagtcgtgtttcatcttaaattttattgttttagtgaataggcagtaaatcacttacttgttttgggcgtctatttgaatttttacacaataattcccaagtgctaagttcaagccttgtggcacccttggggatgaacagcatttacatgcattatcatttattctaattttacttttggggcag
upper sequence: AT1G53730.2 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA07G05230.1 (Glycine max), 5'ss of exon 15
CATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGGCTTTATCCTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaa-actaatg--gtcacaaatcgagtcttgcaaattcaagaaa--gtcttttactgattttgg--gtcttgtttcttaacag--------------------------------------------------------------------------------------------------
|| ||||| | || |||||||||||||| | | |||| | || ||||| || ||||||||||||||||| |||||||| ||||| ||||| ||||||| | | || || | | | || | | || | || | ||| |||||| |||| || ||
TATCGATGCCCTGGCTAAAATGGTTGATCCTACATTGGAAGGATTATACCCTGTGAAGTCCCTTTCTCGATTTGCGGATGTTATTGCTCTGTGTGTTCAGgtaatgtcagtcatgtttcatcttaatttttatttagtgaataggctgtacatcacttgttttgggagtctaattgaactgtagcttggggtaagttcaagcattggggtacccttggggatgaacaacatttacatgtattaatccattatcatgttattctaattttacttttggggcagMapped 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|164205593|gb|ES031074.1|ES031074EST: CTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAG CCGGAGCCGGAGTTTAGACCACCAATGTCTGAAGTTGTGC
genomic: CTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaaactaat ... ttcttaacagCCGGAGCCGGAGTTTAGACCACCAATGTCTGAAGTTGTGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTGATGCTTTAGCCAAAATGGTTGATCCAGCTCTTAAAGGGCTTTATCCTGTCAAATCCCTTTCTCGATTTGCAGATGTTATCGCTCTCTGTGTCCAGgtaaactaatggtcacaaatcgagtcttgcaaattcaagaaagtcttttactgattttgggtcttgtttcttaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG