Sequence
atgc intronic sequence ATGC exonic sequence...ttgctttgatgcagcgcttgtaatgttgcatggctaccttcgactaatatcggatttggaattatcctcctaactgatttaccttttatctcttatgcagATCATTTTTCTGGAAACACTATGCAATGATGAGCGCATTATTGAAAGAAACATACGTCTAAAAATCCAGCAAAGTCCTGACTATTCAGAAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G07110.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GRMZM2G021846_T01 (Zea mays), 3'ss of exon 11
--------ttgcttt---gatgcagcgcttgtaatgttgcatggctaccttcgactaatatcggatttggaattatcctcctaactgatttaccttttatctcttatgcagATCATTTTTCTGGAAACACTATGCAATGATGAGCGCATTATTGAAAGAAACATACGTCTAAAAATCCAGCAAAGTCCTGACTATTCAGAAGA
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ccgtaaaatttctcaaaaaattgaccatttgtcttgatgcattttgtacatctgctcataat---tttgaccttctcgtaatgattgaagtcactttc--------tgcagATTATATTTTTGGAGACAATATGTAATGATCCAAACATAATTGAAAGAAACATACGGCTGAAGATCCAACAAAGTCCAGACTATGCTGAACA
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA02G39390.1 (Glycine max), 3'ss of exon 11
---------------ttgctttgatg--cagcgct-tgtaatgttgcatggctaccttcgactaatatcggatttggaattatcctcctaactgat-ttaccttttatctcttatgcagATCATTTTTCTGGAAACACTATGCAATGATGAGCGCATTATTGAAAGAAACATACGTCTAAAAATCCAGCAAAGTCCTGACTATTCAGAAGA
| | |||| | ||| |||||| | | ||| | | | || || ||| |||| ||||| || |||| | | | | ||||||||||||||||||||| |||||||||||| ||| ||||| || || || || | ||||| |||||||||||||||||| ||||||
gtattgtagtcagagtctcacagatgggtactgctatgtaatat-gtatgataatatgatatgaaaatgatattcttaatttcgaagtcttctgatgtttccttgcttttttgctacagATCATTTTTCTGGAAACAATATGCAATGATGTAGACATAATTGAGAGGAATATTCGCTTTAAAATTCAGCAAAGTCCTGACTATGCAGAAGT
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA14G37520.3 (Glycine max), 3'ss of exon 11
---------------ttgctttgatg--cagcgct-tgtaatgttgcatggctaccttcgactaatatcggatttggaattatcctcctaactgattta-ccttttatctcttatgcagATCATTTTTCTGGAAACACTATGCAATGATGAGCGCATTATTGAAAGAAACATACGTCTAAAAATCCAGCAAAGTCCTGACTATTCAGAAGA
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gtattgtagtcagtgtctcacagatgggtactgctatgtaatat-gtatga-taattgatatgaaaatgatatttttaattttgaagtcttccaatgtatccttgtgtttttgttgcagATCATTTTTCTGGAAACGATATGCAATGATGTTGACATAATTGAGAGGAATATACGCTTTAAAATTCAGCAGAGTCCCGACTATGCAGAAGT
upper sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 11
-ttgctttgatgcagcgctt-gtaatgttgcatggctaccttcgactaatatcggatttggaattatcc--tcctaactgatttaccttttatctctta--tgcagATCATTTTTCTGGAAACACTATGCAATGATGAGCGCATTATTGAAAGAAACATACGTCTAAAAATCCAGCAAAGTCCTGACTATTCAGAAGA
|| || || || ||| | || | | | ||||| | | | | ||| ||||| |||||| ||| || | || | |||| |||||| |||||||| | ||||||||||||||||||||||||||||| |||||||| ||||| || ||||| ||||||||| |||||||
caaaagttcatctggcattttgtagttcagcggaaatgtcat------atatctagtcttaatctctccattcctatctgattcgtgtttaatgttttccttatagATTATTTTTTTGGAAACAATCTGCAATGATGAGCGCATTATTGAAAGAAATATACGTCTTAAAATTCAACAAAGCCCTGACTATGCAGAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatcggatttggaattatcctcctaactgatttaccttttatctcttatgcagATCATTTTTCTGGAAACACTATGCAATGATGAGCGCATTATTGAAAGAAACATACGTCTAAAAATCCAGCAAAGTCCTGACTATTCAGAAGA
tttaccttttatctct CT-rich tract
ttttatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctttgatgcagcgcttgtaatgttgcatggctaccttcgactaatatcggatttggaattatcctcctaactgatttaccttttatctcttatgcagATCATTTTTCTGGAAACACTATGCAATGATGAGCGCATTATTGAAAGAAACATACGTCTAAAAATCCAGCAAAGTCCTGACTATTCAGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - gatttgg