Sequence
atgc intronic sequence ATGC exonic sequence...ttctttttataaattttcttttgttagtttttaaaattttagtttgttcattaaatttatagattcttcttctcctgatttgtgttttttgatctttcagCATGCTCAAGACACTGGAAAGGTATCAGAAGTGTAGCTATGGCTCCATTGAAGTCAACAACAAACCTGCTAAAGAGCTTGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G02310.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G02310.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G50900.1 (Glycine max), 3'ss of exon 1
ttctttttataaattttcttttgttagtttttaaaattttagtttgttcattaaatttatagattc--ttcttctcctgatttgtgttttttgatctttcagCATGCTCAAGACACTGGAAAGGTATCAGAAGTGTAGCTATGGCTCCATTGAAGTCAACAACAAACCTGCTAAAGAGCTTGAG
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--attgttgataaccttttagtaattgtggtatgcatggttatccatacatcatcttaattgatatgactgttcttcctttctttgtctaccttcaaatcagCATGCTCAAAACACTTGAAAGGTACCAGAAATGCAGCTATGGTGCTGTGGAAGTTAGCAA---ACCTGCCAAAGAGCTCGAG
upper sequence: AT3G02310.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA13G06730.1 (Glycine max), 3'ss of exon 1
----------ttctttttataaattttcttttgttagtttttaaaattttagtttgttcattaaatttatagattcttcttctcctgatttgtgttttttgatctttcagCATGCTCAAGACACTGGAAAGGTATCAGAAGTGTAGCTATGGCTCCATTGAAGTCAACAACAAACCTGCTAAAGAGCTTGAG
| | | || |||||| || || || ||| || ||||| |||||| | || | || |||| | |||||||||||| ||||| |||||||| || ||||| |||||||| | ||||||||| ||| ||||| ||||||||||||
gattagataacccagaatgtgaaacaccttttggtatggtt----atccatacaccatcaccaattttattagttcttcctttctc------tccttcttgaatctgcagCATGCTCAAAACACTTGAAAGGTACCAAAAGTGCAGCTATGGTGCAGTTGAAGTCAGCAA---ACCTGGCAAAGAGCTTGAG
upper sequence: AT3G02310.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA19G04320.1 (Glycine max), 3'ss of exon 1
-----ttctttt--tataaattttcttttgttagtttttaaaattttagtttgttcattaaatttatagattcttcttctcctgatttgtgttttttgatctttcagCATGCTCAAGACACTGGAAAGGTATCAGAAGTGTAGCTATGGCTCCATTGAAGTCAACAACAAACCTGCTAAAGAGCTTGAG
|| ||| | || |||||||| || |||| || | | || | |||| ||| | || | || || | | || | |||||||||||| ||||| |||||||| || ||||| |||||||| | | ||||||| ||| ||||| ||||||||||||
tatggctcatttggtgtagtaattcttttggtatggtttatgat----atccatacacca---ttatcaattttactagttcttcctttctctcctcgaatctgcagCATGCTCAAAACACTTGAAAGGTACCAAAAGTGCAGCTATGGTGCAGTGGAAGTCAGCAA---ACCTGGCAAAGAGCTTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttcattaaatttatagattcttcttctcctgatttgtgttttttgatctttcagCATGCTCAAGACACTGGAAAGGTATCAGAAGTGTAGCTATGGCTCCATTGAAGTCAACAACAAACCTGCTAAAGAGCTTGAG
ttttttgatctttc CT-rich tract
ttaaatttatagattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctttttataaattttcttttgttagtttttaaaattttagtttgttcattaaatttatagattcttcttctcctgatttgtgttttttgatctttcagCATGCTCAAGACACTGGAAAGGTATCAGAAGTGTAGCTATGGCTCCATTGAAGTCAACAACAAACCTGCTAAAGAGCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - agtttgt
- - - - - - - - - - - - - - - - - - - - - - - - cattaaa