Sequence
atgc intronic sequence ATGC exonic sequencegtacgttttacttccttggccagattgcctagtgctgtgttggttttatgagctaactttactaaactgacctgtcttggctctgaggacagttttcttttacgtgatctggctttgtaaattcttctttacttgcagGTTAAGAGTTTCATCCTTCTTGGTGATGTTCACAAAAGCATATACTTTCTTAGCTGGAAGGAACAAGGGTCCCAACTTAGCTTACTAGCCAAAGATTTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51660.1 |
intron # | 23 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51660.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: GLYMA16G32890.1 (Glycine max), 3'ss of exon 23
gtacgttttacttccttggccagattgcctagtgctgtgttggttttatgagctaactttactaaactgacctgtcttggctctgaggacagttttcttttacgtgatctggctttgtaaattcttctttacttgcagGTTAAGAGTTTCATCCTTCTTGGTGATGTTCACAAAAGCATATACTTTCTTAGCTGGAAGGAACAAGGGTCCCAACTTAGCTTACTAGCCAAAGATTTTG
||| ||| | |||| | || || | | | || ||| | || | | | | || | || | || ||| || | ||| |||| |||| ||||||||| |||| ||| | || |||||||||||||||||||| ||||| || || || | ||| | |||||| ||||||| |||||||
-----------------------gttgg-tagggtcaaattggaaatgtgtcctggttgttatcaaatgattaattgtgccccca-----------cctccacct---cttgattagtagatgtcatcatttttgtagGTAAAGAACTTCATCCTTATTGGCGATATCCATAAAAGCATATACTTTCTTAGTTGGAAAGAGCAGGGTGCTCAATTGAGCTTATTAGCCAAGGATTTTG
upper sequence: AT5G51660.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: GLYMA09G28030.1 (Glycine max), 3'ss of exon 23
gtacgttttacttccttggccagattgcctagtgctgtgttggttttatgagctaactttactaaactgacctgtcttggctctgaggacagttttcttttacgtga--tctggctttgtaaattcttctttacttgcagGTTAAGAGTTTCATCCTTCTTGGTGATGTTCACAAAAGCATATACTTTCTTAGCTGGAAGGAACAAGGGTCCCAACTTAGCTTACTAGCCAAAGATTTTG
||| | | | | || | | ||||| ||| | | ||||| | | | ||| | || || | | ||| |||| |||| ||||||||| |||| ||| | || |||||||||||||||||||| ||||| || || || | ||| | |||||| ||||||| |||||||
---------------------------------------ttgatataacatgagaaactcatataactg-tatgttatcaaatgattaatagtttcccccacccccacctcttgattaatagctgtcatcatttttgtagGTAAAGAACTTCATCCTTATTGGCGATATCCATAAAAGCATATACTTTCTTAGTTGGAAAGAGCAGGGTGCTCAATTGAGCTTATTAGCCAAGGATTTTG
upper sequence: AT5G51660.1 (Arabidopsis thaliana), 3'ss of exon 23
lower sequence: Vv16s0022g01860.t01 (Vitis vinifera), 3'ss of exon 23
gtacgttttacttccttggccagattgcctagtgctgtgttggttttatgagctaactttactaaactgacctgtcttggctctgaggacagttttcttttacgtgatctggctttgtaaattcttctttac--ttgcagGTTAAGAGTTTCATCCTTCTTGGTGATGTTCACAAAAGCATATACTTTCTTAGCTGGAAGGAACAAGGGTCCCAACTTAGCTTACTAGCCAAAGATTTTG
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---------------------------accagtgcattgtggttcatgcatgttgttgcaac--atctgctccatgttagt-------gccattttttcatgtttgatcttatt----aatttcttaaacatcgttgcagGTTAAGAATTTTATCCTCCTAGGTGACATTCACAGAAGCATTTACTTTCTTAGTTGGAAGGAACAGGGAGCTCAACTTAACTTATTAGCGAAAGATTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaggacagttttcttttacgtgatctggctttgtaaattcttctttacttgcagGTTAAGAGTTTCATCCTTCTTGGTGATGTTCACAAAAGCATATACTTTCTTAGCTGGAAGGAACAAGGGTCCCAACTTAGCTTACTAGCCAAAGATTTTG
ttcttctttacttgc CT-rich tract
taaattcttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgttttacttccttggccagattgcctagtgctgtgttggttttatgagctaactttactaaactgacctgtcttggctctgaggacagttttcttttacgtgatctggctttgtaaattcttctttacttgcagGTTAAGAGTTTCATCCTTCTTGGTGATGTTCACAAAAGCATATACTTTCTTAGCTGGAAGGAACAAGGGTCCCAACTTAGCTTACTAGCCAAAGATTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA