Sequence
atgc intronic sequence ATGC exonic sequenceGTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagctcctcttatctctccagtcttgaatctagcttttttgtcaccccttttggcaatttcttcaagccctaagctactttaatagtttcgtgtt...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G80350.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os01g49000.1 (Oryza sativa), 5'ss of exon 1
GTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagct--cctcttatctctccagtcttgaatctagcttttttgtcaccccttttggcaatttcttcaagccctaagctactttaata-gtttcgtgtt
| || || |||||| | || | ||| | || || || || || ||| ||| ||||| || ||||||||||||| |||||||| || ||||||||||||| || | || | | || | ||| | ||| | |||| | | | | || | | || | || |||
GGCTGCAGGACCACCTCAAGCTCGCGCGGGACTACGCGCTCGAGGGACTCTACGACACCTCCATCATCTTCTTCGACGGCGCCATCGCCCAGATCAACAAgtgagctccctaccatccccccccccctccgcgaagccgccttccctactacccttctc--cctctctctcgattcagtcgcggttggggcgtgtgcggtga-
upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G054715_T01 (Zea mays), 5'ss of exon 1
GTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagctcctcttatctctccagtcttgaatctagcttttttgtcaccccttttggcaatttcttcaagcccta---agctactttaatagtttcgtgtt------
| || || |||||| | || | ||| | || || || || || || || ||||| || | ||||||||||| ||||||||||||||||||||||||| || |||| | ||| | ||| | | | || || || || | ||| | | ||| || ||| | | | |
GGCTGCAGGACCACATCAAGCTTGCGCGGGATTACGCGCTCGAGGGCCTATACGACACCTCCATAATCTTCTTCGACGGCGCCATTGCTCAGATCAACAAgtgagc--ttcctataatcccc-------tgaccccggttccccagttgccgtattacgccgtggattcgatcgctatcaggccactacggcgaatcggcgatcagtgg
upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G017305_T01 (Zea mays), 5'ss of exon 1
GTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagctcctcttatctctccagtcttgaatct--agcttttttgtcaccccttttggcaatttcttcaagccctaagctactttaatagtttcgtgtt----
| || || |||||| | || | ||| | || || || || || || ||| ||||| || ||||||||||||| |||||||| || ||||||||||||| || || || || | | | | ||| || | | | || || | | | | | | ||||| || | | |
GGCTGCAGGACCACCTCAAGCTCGCGCGGGACTACGCGCTCGAGGGCCTCTACGACACCTCCATCATCTTCTTCGACGGCGCCATCGCCCAGATCAACAAgtgag---cttcttataatcccctgaccccggttctccagttgccctattacgccgt---ggattcgatggctatatcagtctactacggcgaattggcgatgagt
upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv09s0002g05260.t01 (Vitis vinifera), 5'ss of exon 1
GTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagctcctcttatctctccagtct-tgaatctagcttttttgtcaccccttttggcaatttcttcaagccctaagctactttaatagtttcgtgtt-
| ||||||| ||| ||||||| ||||| || || || || ||||| ||| ||||| || | |||||||| ||||| ||||||||||||||||||||||| || |||| | | | ||| ||| | ||| |||| | | | | ||| | | ||| || | |||
GGTTACAAGATCACCTGAAATTGGCGAGGGAGTACGCTCTTGAAGGCCTCTACGACACCTCCATTATCTTCTTTGATGGTGCCATTGCTCAGATCAACAAgtatgttttcgctctcttagtttctctctctgaggtttgctattttcttaggtggaaaattatatgcttttgattt--gggaatggaaattgtattttgtgg
upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ06179 (Selaginella moellendorffii), 5'ss of exon 1
GTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagctcctcttatctctccagtcttgaatctagcttttttgtcaccccttttggcaatttcttcaagccctaagctac-tttaatagtttcgtgtt---
| || || || || | || || ||| | || || || || || ||||| || ||||| ||| ||||||||| ||||||||| || || ||||||||||||||||| || | | || ||| | || | | | | | || | | | ||| | | || | ||
GGCTCCAGGAGCATCTCAAGTTGGCGCGCGAGTACGCGCTGGAGGGATCTTACGACACTTCTATCATCTTCTACGATGGCGCAATCGCGCAGATCAACAAgtaagtggc----cgtgtccctcggcatccgccctgcatttcgatagatctgcctctagctcgctttgggatgcctgtgtgatgcttggcggagctacattgtg
upper sequence: AT1G80350.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: EFJ36428 (Selaginella moellendorffii), 5'ss of exon 1
GTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagctcctcttatctctccagtcttgaatctagcttttttgtcaccccttttggcaatttcttcaagccctaagctac-tttaatagtttcgtgtt---
| || || || || | || || ||| | || || || || || ||||| || ||||| ||| ||||||||| ||||||||| || || ||||||||||||||||| | | | || ||| | || | | | | | || | | | ||| | | || | ||
GGCTCCAGGAGCATCTCAAGTTGGCGCGCGAGTACGCGCTGGAGGGATCTTACGACACTTCTATCATCTTCTACGATGGCGCAATCGCGCAGATCAACAAgtaagtg----cccgtgtccctcggtatccgccctgcatttcgatagatctgcctctagctcgctttgggatgcctgtgtgatgcttggcggagctacattgtgMapped 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|19875893|gb|AU236724.1|AU236724EST: TATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAA GCATTTAAACACCCTTGACGATCCTTTGGCCCGGACCAAATGGATGAACGT
genomic: TATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagct ... actgttttagGCATTTAAACACCCTTGACGATCCTTTGGCCCGGACCAAATGGATGAACGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCTACAAGACCACTTGAAATTAGCGAGAGAATATGCACTAGAAGGATCCTATGACACATCTGTCATCTTCTTCGATGGCGCCATTGCTCAGATCAACAAgtaagtagctcctcttatctctccagtcttgaatctagcttttttgtcaccccttttggcaatttcttcaagccctaagctactttaatagtttcgtgtt
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