Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaagatatcaaatcttgaaaaaacagaatgatctgaggatatatgatgatcgtaagtgtttgtatatgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTTGTCCCACGCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G01480.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G01480.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G42280.1 (Glycine max), 3'ss of exon 4
-------------------gtaaaaagatatcaaatcttgaaaaa--acagaatgatctga---------ggatatatgatgatcgtaagtgtttgtatatgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTTGTCCCACGCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTA
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gtacaaaaccaattgcctggttattggaattgaagtctctacttactgccaaatgatttgtttcctatacacatctatctttatgcttacgattttcgaataattcatagGTTGATCGGGTTTTGTATTCATCAGTTGTTTATCCTCATAACTATGGTTTTATCCCTCGCACACTGTGTGAAGACAATGATCCAATTGATGTTTTGGTTC
upper sequence: AT4G01480.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G45050.1 (Glycine max), 3'ss of exon 3
---------------------------------------------gtaaaaagatatcaaatcttgaaa-aaacagaatgatctgaggatatatgatgatcgtaagtgtttgtatatgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTTGTCCCACGCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTA
||| || | | | | | | | | | | || ||| | || | | ||| | || | ||||||||| || || | ||||| || ||||| ||||| || ||||| || ||| |||| |||||||| |||||||||||||| || || |||||||| |||
gtacaaaccaattgcctgattactgtaatggaagcccttactgctgtagcttgaaacagattttccagatgatttttttcctatacccatctatctttatgcttacgatttctgaataattcacagGTTGATCGGGTTTTGTATTCATCAGTTGTTTATCCACATAACTATGGTTTTATCCCTCGCACACTGTGTGAAGACAATGATCCAATTGATGTTTTGGTTC
upper sequence: AT4G01480.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: EFJ27171 (Selaginella moellendorffii), 3'ss of exon 2
gtaaaaagatatcaaatcttgaaaaaacagaatgatctgaggatatatgatgatcgtaa-gtgtttgtatatgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTTGTCCCACGCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTA
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--------------------gtgtgaatagtttgatcttttctttcgctactttccagttatgctttggtcgttcttccagGTTGATCGAGTCCTTTATTCCTCGGTGGTTTATCCACACAACTATGGATTTGTTCCACGCACGCTGTGTGAAGACAATGACCCGCTTGACGTTCTTGTGAMapped 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|116470399|gb|EG512991.1|EG512991EST: AGGGGAGCAAAGTCAAATATGAACTTGACNNNNNNNCAGGTCTCATCAAG GTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTT
genomic: AGGGGAGCAAAGTCAAATATGAACTTGACAAAAAAACAGGTCTCATCAAGgtaaaaagat ... tgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTT
EST:
gi|116470397|gb|EG512989.1|EG512989EST: AGGGGAGCAAAGTCAAATATGAACTTGACNNNNNNNCAGGTCTCATCAAG GTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTT
genomic: AGGGGAGCAAAGTCAAATATGAACTTGACAAAAAAACAGGTCTCATCAAGgtaaaaagat ... tgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacagaatgatctgaggatatatgatgatcgtaagtgtttgtatatgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTTGTCCCACGCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTA
atatatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaagatatcaaatcttgaaaaaacagaatgatctgaggatatatgatgatcgtaagtgtttgtatatgtctatcagGTTGATAGGATTCTTTATTCTTCGGTTGTGTATCCTCACAACTACGGGTTTGTCCCACGCACACTATGTGAAGACAATGACCCTATAGATGTTTTAGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA