Sequence
atgc intronic sequence ATGC exonic sequencegtaaagtattgtctcaactcttgagtgtgaagtttagttacaaaagttgcagttttcaaggttatgcataaaaaattgcagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G26780.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: LOC_Os03g52840.2 (Oryza sativa), 3'ss of exon 8
gtaaagtattgtctcaactcttgagtgtgaagt--ttagttacaaaagttgcagttttcaaggttatgcataa--aaaattgcagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
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gtgaattttactgctcaatagtgcatgctgaatcttcaccttctgtaat--cagtcaaataattcacttgttatgcaatctgcagGTTTGTGACAAGCAGAAGGCAATACTTCTAGCAGATATGGCACATATCAGTGGGCTTGTCGCAGCTGGTGTTGTTCCATCTCCTTTTGATTATGCAGATG
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GRMZM2G135283_T03 (Zea mays), 3'ss of exon 8
-----------------------------------------------------------------gtaaagtattgt-ctcaactcttgagtgtgaagtttagttacaaaagttgcagttttcaaggttatgcataaaaaattgcagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
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gcaaggtttctttccacgatagtattttttctccaagatgcaagggagctgcacattattatattacagagaactatacagaacattgaaccgcgatctttttttttttatcaatcaaataattccataatgt-tatgtgtcgacagATATGCAACAAGCAGAAGGCAATACTTCTAGCAGACATGGCACATATTAGTGGGCTTGTTGCAGCTGGTGTTGTTCCATCTCCTTTTGATTATGCAGATG
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA02G38160.2 (Glycine max), 3'ss of exon 8
-----------gtaaagtattgtctcaactcttgagtgtgaagtttagttacaaaagttgcagttttcaaggttatgcataaaaaattg--cagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
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gtaaattatatctgatacagaaacttaggtatttaatgtttagaacaatt-cagtcatgatgatattgaatcttatatgcttgaatttgtacagGTCTGTGATAAGCAGAAGGCAGTTCTGTTGGCTGATATGGCACATATCAGTGGATTGGTTGCTGCAGGTGTTATTCCTTCTCCTTTTGATTATGCAGATG
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: GLYMA14G36280.1 (Glycine max), 3'ss of exon 8
-----------gtaaagtattgtctcaactcttgagtgtgaagtttagttacaaaagttgcagttttcaaggtt--atgcataaaaaattgcagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
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gtaatttatatctgatacagaaacttaggtatttaatgtttagaacaatt-cagtcatgatggtattgaatcttttatgcttgaatttgtatagGTCTGTGATAAGCAGAAGGCAGTTCTGTTGGCTGATATGGCACATATCAGTGGATTGGTTGCTGCCGGTGTTATTCCTTCTCCTTTTGATTATGCAGATG
upper sequence: AT5G26780.3 (Arabidopsis thaliana), 3'ss of exon 8
lower sequence: Vv18s0001g07960.t01 (Vitis vinifera), 3'ss of exon 8
--------------------------------gtaaagtattgtctcaactcttgagtgtgaagtt-tagttacaaaagttgcagttttcaaggttatgca------------taaaaaattgcagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
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gtaagagattttggtttgagggacactactgcgttcatcatagtcacaacattaaagttctctattattattttaaagtctaaatgtttagaaatcgtgtaactttaaattcttaggatttaacagGTGTGTGACAAGCAGAAAGCTGTCATGTTGGCAGACATGGCACATATTAGTGGGTTGGTTGCTGCTGGTGTTATCCAATCTCCTTTTGAATATGCTGATAMapped 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|125303509|gb|EL317594.1|EL317594EST: CGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAG GTCTGTAACAAGCAAAAGG
genomic: CGGGTGCAAGTGCTTATGCTCGTCTATATGACTATGCACGTATTCGTAAGgtaaagtatt ... aaaattgcagGTCTGTAACAAGCAAAAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaagtttagttacaaaagttgcagttttcaaggttatgcataaaaaattgcagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
ttatgcataaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagtattgtctcaactcttgagtgtgaagtttagttacaaaagttgcagttttcaaggttatgcataaaaaattgcagGTCTGTAACAAGCAAAAGGCAGTTATGTTGGCTGATATGGCTCATATTAGTGGGTTGGTTGCTGCTGGCGTTATTCCTTCTCCTTTTGAGTATGCAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG