Sequence
atgc intronic sequence ATGC exonic sequenceATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G26670.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os02g31874.2 (Oryza sativa), 5'ss of exon 10
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctat---tgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
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CCTGTCTCTTTTTGATGCAATACTGATTGTTCCAATGTTTCAGATTGCTTGGACCTTTTTTTCTATTTGCACAGGATTTGTGTACTTTCAAGAATATCAAgtgagtttctgtttgtaaatattatcgtaagcatgagaatcttgtgttgctcatgataaactaagggttttg--gattgccttcattag----------------------------------------------------------------
upper sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G144254_T03 (Zea mays), 5'ss of exon 7
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcat--ctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
||||| ||| ||||||||| || || |||||||||||||| ||||||||||| |||||||| ||||||||||||| ||||||||||||| | ||| || | || || | | || ||| | | | || | |||| | | || | | | |||| | | |||||
GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATCTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaggttcctgtttgagataatgggataatgaaaag-----tgaatcatgcattgcttaattagaaactgggtattctgttt--ttcctctgtcag--------------------------------------------------------
upper sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G477146_T01 (Zea mays), 5'ss of exon 10
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
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GCTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGCTTGGACCTTCTTCTCTATTTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaagttc-ctgtttgtgataatcggataatgaagtgaatcatgcatttcc---tcattataaacc--gatgattctgtttttc-tgctgtcag--------------------------------------------------------
upper sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM5G837932_T01 (Zea mays), 5'ss of exon 1
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatc--tattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
||||| ||| ||||||||| || || |||||||||||||| |||| |||||| |||||||| || |||||||||| ||||||||||||| | ||| || | | || | || | | ||| | | | | || | | |||| | || ||||||| || || | |||||
GTTGTCATTATTTGATGCAATACTGATTGTTCCAATGTTTCAAATTGTTTGGACCTTCTTCTCTATTTGTACAGGATTTGTTTACTTTCAAGAATATCAAgtaagttcttgtttattataatcggataatgaag---tgaatcatgcatttcc----taattataaact-gatgattctgtttttc-tgctgtcag--------------------------------------------------------
upper sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA16G26550.1 (Glycine max), 5'ss of exon 11
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
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ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAACATGGACTTTCTTCTCAATCTGTACAGGATTTATCTATTTTCAAGAATATCAGgtactttctct--ctcacttaatatgcacaggtagcctttgctttgcatgggcactc-taagaa----gat--ttaatcatataatattgaagaaaactaat-taaatac----------------------------------------
upper sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA02G07510.2 (Glycine max), 5'ss of exon 11
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
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ACTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAGATAGCATGGACTTTGTTCTCAATATGTACAGGATTTATATATTTTCAAGAATATCAGgtacttcctct--ttaacttgatacacacaggtagcctttgcctttcatgggcact--------ctaagaagatt----taatcatattattgaagaaaactaa----ttaaatatca--------------------------------
upper sequence: AT3G26670.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv14s0068g00780.t01 (Vitis vinifera), 5'ss of exon 10
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagat--gattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
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GTTGTCATTGTTTGATGCAATTCTTATTGTTCCCATGTTTCAAATTGCTTGGACTTTCTTCTCTATTTGTACAGGATTTGTATACTTTCAGGAATATCAGgtgctctctct-------------ctctctctctctctctcttatagaacctagtgactgaaaatttaacttaggtcaatttggctccattttacttg--tgctgctcactggga-------------------------------------Mapped 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|125313368|gb|EL327453.1|EL327453EST: GGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTT-CAG GTTTTCGATGCGCTAAGAACAACAATGTTCATAT
genomic: GGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctat ... ccttaaacagGTTTTCGATGCGCTAAGAACAACAATGTTCATAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTGTCTCTATATGATGCAATTCTCATAGTTCCAATGTTTCAGATTGCTTGGACTTTCTTCTCCATCTGTACAGGATGCATTTACTTTCAAGAGTTTCAGgttcatctattgactacattgtgatgcttttcctctcttttctttatcttcgggctaatacggatctagatgattagtttgatcattttgtcacagaatggtgtgggtttagggatagtcgcttagataattttcttcttccttaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG