Sequence
atgc intronic sequence ATGC exonic sequence...ttagtttgttgtctcctggattctctattacatgacaacagcgcttgggtttgagtactagatattcaagatggtgttttggttttactgatgaatgtagGAGAGGTTGAATAGATCTCTTGTGGTTTGTCAAGACAAGTTTGAGGTTGCTAAGCAACAGAAGACGAGAAGTGAAGCGGTAAATGATTTGGAGCATTGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G43720.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G43720.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA06G47800.1 (Glycine max), 3'ss of exon 3
ttagtttgttgtctcctggattctctattacatgacaacagcgcttggg--tttgagtactagatattcaagatggtg-ttttggt----tttactgatgaatgtagGAGAGGTTGAATAGATCTCTTGTGGTTTGTCAAGACAAGTTTGAGGTTGCTAAGCAACAGAAGACGAGAAGTGAAGCGGTAAATGATTTGGAGCATTGTG---
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----atggtggtgccataggc-ctccatgg--tgatggcggaattttggccttccgccatccatcattgataatgttgactctgaccgtgttttcaacttggtgcagGAGAGGTTGAATAGATCTCTGATGGTGTGTCAAGATAAGTACGAGGCGGCTAGGCTACAGAAGA---AAAATGATGCTATGAATGATTTGGTTTCCTGTGCTG
upper sequence: AT2G43720.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA02G06480.3 (Glycine max), 3'ss of exon 3
ttagtt-tgttgtctcctggattctctattacatgacaacagcgcttgggtttgagtactagatattcaagatggtgttttggttttactgatgaatgtagGAGAGGTTGAATAGATCTCTTGTGGTTTGTCAAGACAAGTTTGAGGTTGCTAAGCAACAGAAGACGAGAAGTGAAGCGGTAAATGATTTGGAGCATTGTG---
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atggtggtgccataggccgccatggtgatggcggaattttggccttccgccatccatcattgataatgttgactctgaccgtgtttt-caacttggtgcagGAGAGGTTGAATAGATCTCTGATGGTGTGTCAAGATAAGTACGAGGCGGCTAGGCTACAGAAGA---AAAATGATGCTATGAATGATTTGGTTTCCTGTGCTGMapped 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|164008464|gb|ES147946.1|ES147946EST: CTATCACAAATGCACAGAACTACTTTGATAATGAGATGTCGGTGTTCCAA GAGAGGTTGATTAGATCTCTT
genomic: CTATCACAAATGCACAGAACTACTTTGATAATGAGATGTCGGTGTTCCAAgtgagtctat ... atgaatgtagGAGAGGTTGAATAGATCTCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggtttgagtactagatattcaagatggtgttttggttttactgatgaatgtagGAGAGGTTGAATAGATCTCTTGTGGTTTGTCAAGACAAGTTTGAGGTTGCTAAGCAACAGAAGACGAGAAGTGAAGCGGTAAATGATTTGGAGCATTGTG
tactgat putative branch site (score: 2)
tagatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagtttgttgtctcctggattctctattacatgacaacagcgcttgggtttgagtactagatattcaagatggtgttttggttttactgatgaatgtagGAGAGGTTGAATAGATCTCTTGTGGTTTGTCAAGACAAGTTTGAGGTTGCTAAGCAACAGAAGACGAGAAGTGAAGCGGTAAATGATTTGGAGCATTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- agtttgt
- - - - - - - - - - - - - - - - -gacaaca
- - - - - - - - - - - - - - - - - - - - - - - -ggtttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttttgg