Sequence
atgc intronic sequence ATGC exonic sequencegtaagtataaaagaaaaaagatggcgacatgtttctttaaaaattgctaatcttgacaaggtttttttttgcttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGACCTGGTGGCTGGAACG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G08380.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G08380.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA09G40990.1 (Glycine max), 3'ss of exon 9
----------gtaagtataaaagaaaaaagatggcgacatgtttctttaa--aaattgcta---atcttgac----aaggtttttttttgcttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGACCTGGTGGCTGGAACG
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tgattgatcttgaaatgtgaccaggcagggtatgtagcattccaccaaaattgaattaatatggattttagctaataaaggtaactattatctttggcagCATGATTTCAAGGGCAGACATGAATGAAGTTTATGCAGAGTATGCAAGACCTGGTGGTTGGAATG
upper sequence: AT5G08380.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA16G34640.1 (Glycine max), 3'ss of exon 7
----gtaagtataaaagaaaaaagatggcgacatgttt--ctttaaaaattgctaatcttgacaaggttttt---ttttgcttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGACCTGGTGGCTGGAACG
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gtaaaaaatcaaaaagcataacaaattgtattaaagttgggtttatactttgttgttgtacaaactatatgtaactattatgtttggcagTATGCTTTCAAAAGCAGATATGAATGAAGTTTATGCTGATTATGCAAGACCTGGTGGTTGGAATG
upper sequence: AT5G08380.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA03G00430.1 (Glycine max), 3'ss of exon 10
---gtaagtataaaagaaaaaagatggcgaca--------tgtttctttaaaaattgc-taatcttgaca---aggtttttttttgcttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGACCTGGTGGCTGGAACG
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gtaaaaagcgataaacaaaaaaaattgtattaaagttgggtttatacttgatagttgtacaaactatatatgtaacttttattctgtttg--gcagTATGCTTTCAAAAGCAGATATGAATGAAGTTTATGCTGATTATGCAAGACCTGGTGGTTGGAATG
upper sequence: AT5G08380.1 (Arabidopsis thaliana), 3'ss of exon 9
lower sequence: GLYMA18G44820.1 (Glycine max), 3'ss of exon 9
-------------gtaagt-ataaaagaaaaaagatggcga--catgtttctttaaaaattgctaatctt----gacaaggtttttttttgcttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGACCTGGTGGCTGGAACG
| || || || | | || || || || || ||| || || || || | | | || | | ||| ||| | |||| ||||| ||||||||||| || || ||| |||||||||||||||| |||||
ttgattggtcttgaaatgtgatcaagcagggtatatagctgttcaccaaaattgaattattttggattttagctgataaaggtaactattatctttggcaGCATGGTTTCAAGGGCAGATATGAATGAAGTTTATGCAGAGTATGCAAGACCTGGTGGTTGGAAT-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|86026650|gb|DR322403.1|DR322403EST: TAGGCAACAGTTGGAGAACCACTAATGACATTAAAGATACTTGGCTTCWG TATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGAC
genomic: TAGGCAACAGTTGGAGAACCACTAATGACATTAAAGATACTTGGCTTA-Ggtaagtataa ... cttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatgtttctttaaaaattgctaatcttgacaaggtttttttttgcttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGACCTGGTGGCTGGAACG
tttttttttgcttgtt CT-rich tract
tttaaaaattgctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtataaaagaaaaaagatggcgacatgtttctttaaaaattgctaatcttgacaaggtttttttttgcttgttacagTATGATCTCAATAGCAGACATGAATGAAGTCTACGCTGAGCATGCAAGACCTGGTGGCTGGAACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA