Sequence
atgc intronic sequence ATGC exonic sequence...tgcggtttttgcgtagcttgtgttcttgatgctgcaatgtgtgtttgttgctaaagttgatggctttgtttgttgtgtcatgtgtggtgatttttgaaagGTGCGGGTTTGCGCAGAGCCAAGAAGCGTATGATGGAGCAGTGAATGAACTCTTTAGTACCTTAGATGAGATTGAGGATCACTTGGGTAGTAATAGATAC
Basic information
species | Arabidopsis thaliana |
transcript | AT5G44000.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G44000.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA10G04570.1 (Glycine max), 3'ss of exon 1
------------------------------------------------------------tgcggtttttgcgtagcttgtgttcttgatgctgcaatgtgtgttt--gttgctaaagttg----atggctttgtttgttgtgtcatgtgtggtgatttttgaa---agGTGCGGGTTTGCGCAGAGCCAAGAAGCGTATGATGGAGCAGTGAATGAACTCTTTAGTACCTTAGATGAGATTGAGGATCACTTGGGTAGTAATAGATAC
| ||| || | | || |||| ||||| || ||| | || ||| ||| | | | | | | ||| | | ||||| || ||||||||||| |||||||| |||||| |||| |||||||| | ||| ||| || || || | ||||||||||||| || | | |||
gttagtcagtagtcaacaattaacaacaactgagaattgagaaattctggcaagactcgcaaaactagttgaaaagttaatcttgaaagcttgaaaatgggtgttgaagtagctgagaatgtaaaatgataaaagttggatttttttttttttttttttgtaattgcagGTGTGGATTTGCGCAGAGTCAAGAAGCTTATGATAGAGCGGTGAATGACTTGTTTTCTACATTGGACAAGTTGGAGGATCACTTGGCTAATTCCCGTTACMapped 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|124971422|gb|EL045189.1|EL045189EST: CAAGGTTGGAATCAGATTGTGTATCCTAAAGTTAACAATGGCGTTTACAG GTGCGGGTTTGCG
genomic: CAAGGTTGGAATCAGATTGTGTATCCTAAAGTTAACAATGGCGTTTACAGgtaaattgga ... tttttgaaagGTGCGGGTTTGCG
EST:
gi|125295636|gb|EL309721.1|EL309721EST: CAAGGTTGGAATCAGATTGTGTATCCTAAAGTTAACAATGGCGTTTACAG GTGCGGGTTTGCG
genomic: CAAGGTTGGAATCAGATTGTGTATCCTAAAGTTAACAATGGCGTTTACAGgtaaattgga ... tttttgaaagGTGCGGGTTTGCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttgctaaagttgatggctttgtttgttgtgtcatgtgtggtgatttttgaaagGTGCGGGTTTGCGCAGAGCCAAGAAGCGTATGATGGAGCAGTGAATGAACTCTTTAGTACCTTAGATGAGATTGAGGATCACTTGGGTAGTAATAGATAC
ttttt CT-rich tract
atttttgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcggtttttgcgtagcttgtgttcttgatgctgcaatgtgtgtttgttgctaaagttgatggctttgtttgttgtgtcatgtgtggtgatttttgaaagGTGCGGGTTTGCGCAGAGCCAAGAAGCGTATGATGGAGCAGTGAATGAACTCTTTAGTACCTTAGATGAGATTGAGGATCACTTGGGTAGTAATAGATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - gtttttg
- - - - - - - - - - - - - - - - - - - - -tgtttgt
- - - - - - - - - - - - - - - - - - - - - - - - - ctaaagt