Sequence
atgc intronic sequence ATGC exonic sequence...ttgcatgtaacaactgaataactttgctagcaactgaaatatgatgaatattattaaattcttctgttagatgctatgactataatgttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G24430.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os01g52170.1 (Oryza sativa), 3'ss of exon 8
ttgcatgtaacaactgaataactttgctagcaactgaaatatgatgaatattattaaattcttctgttagatgctatga---ctataatgttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
|| | || || | | || || | || || || ||| || || ||| || |||| ||||||| || |||||||| ||||| || ||||| ||||||||||| ||| | || || || ||||||||||| || || || ||||| || || || |||
------gtggtacctc--tagcctgagtattgtacaaatcacacgtggtaacatcaaccatgcttgt-aggcactgtgaaatttaacatgtctgaaacatcagGTAGCCCCATTGACTGCAGCTGTCATTGTTACCACCCCTCAGAAGCTTGCTTTCATCGATGTTGCAAAGGGAGTTAGAATGTTTTCCAAGCTGAAG
upper sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G129208_T01 (Zea mays), 3'ss of exon 7
ttgcatgtaacaactgaataactttgcta-gcaactgaaatatgatgaatattattaaattcttctgttagatgctatgac-tataatgttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
|| || || | || |||| ||| | || | | | || |||| || || | | || ||||| || |||||||| || |||||||| ||||| || ||||| ||||||||||||||| |||| || ||||||||||| || || |||||||||||||| ||||| |||
----gtgctaccacc-agcctctgtgctgtacaaatcgtatgtagtaa----catcaaatactccttcaaagcattgcgaaatataacgtctgaaatatcagGTGGCTCCATTGACTGCAGCAGTGATTGTTACCACCCCTCAAAAGCTGGCTTTCATTGATGTTGCCAAGGGAGTAAGGATGTTCTCTAAACTGAAG
upper sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G09820.1 (Glycine max), 3'ss of exon 8
ttgcatgtaacaactgaataactttgctagcaactgaaatatgatgaata--ttattaaattcttctgttagatgctatgactataat-gttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
| | | ||| ||| | || | | | | ||| || ||| | | | | || | |||| | | | | | |||| | ||||| || || || |||||||| ||||| ||||||||| || |||| ||||||||||||||||| || ||||||| ||||||||||||
---cttaggaagcctgtatagtgtatatatcctttaattgtttgccaatgtctttttagttgccagttctcattgattcgactttggttgcatatttctttagGTAGTTCCATTAACTGCTGCTGTAATTGTTACCACTCCTCAAAAGCTGTCGTTCATTGATGTTGCAAAAGGAGTTCGGATGTTTTCAAAACTTAAG
upper sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G31980.1 (Glycine max), 3'ss of exon 8
ttgcatgtaacaactgaataactttgctagcaactgaaatatgatgaata--ttattaaattcttctgttagatgctatgactataatgttcttggtatc-agGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
| | | ||| ||| | || | | | | | ||| || ||| | | | | || | |||| | | | ||| |||| | ||||| || || || |||||||| ||||| ||||||||| || |||| ||||||||||||||||| || ||||||| ||||||||||||
---cttaggaagcctgtatagtgtatatatcctttaattgtttgtcaatgtctttttagttgccaattctcattgattcgactttggttgcatatttatttagGTAGTTCCATTAACTGCTGCTGTAATTGTTACCACTCCTCAAAAGCTGTCGTTCATTGATGTTGCAAAAGGAGTTCGGATGTTTTCAAAACTTAAG
upper sequence: AT3G24430.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv11s0016g04250.t01 (Vitis vinifera), 3'ss of exon 7
---ttgcatgtaa---caactgaataactttgctagcaactgaaatatgatgaatattattaaattcttctgttagatgctatgactataatgttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
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ctattttatgaaaatcttcctgcatagctcatctgaatcctaagaattccttagt-tcagtacttcctacaatttga-gttgg----atgaatttcaacttttcagGTTGTTCCACTAACAGCTGCGGTTATTGTTACCACCCCACAGAAGCTAGCCTTCATTGATGTTGCAAAAGGAGTCCGTATGTTTTCAAAACTTAAGMapped 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|125251190|gb|EL265275.1|EL265275EST: TATCGACATGACCTCCTGGAACTGGTGATATACAACTGACCTTATGCCAG GTTGCGCCATTGACA
genomic: TATCGACATG-CCTCCTGGAACTGGTGATATACAACTGACCTTATGCCAGgttcggtttt ... ttggtatcagGTTGCGCCATTGACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatattattaaattcttctgttagatgctatgactataatgttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
tgttctt CT-rich tract
ttattaaattcttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgcatgtaacaactgaataactttgctagcaactgaaatatgatgaatattattaaattcttctgttagatgctatgactataatgttcttggtatcagGTTGCGCCATTGACAGCAGCGGTAATTGTCACCACCCCTCAAAAGTTGGCGTTTATTGATGTTGCAAAAGGTGTAAGGATGTTCTCAAAACTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - gtaacaa
- - - - - - - -gaataac
- - - - - - - - - - - - - - - - -ctgaaat