Sequence
atgc intronic sequence ATGC exonic sequencegtacaactttctgccgatttcgtattgacgatgaccattgagcattcaaatgttcactatatcttctggatattcctcatcggttgcactgagatatgatatgaatgtatgcagATGTCTGCAGCTGCTTTTGCCAAAGGCCTGCTTGACCTAGAAGGACAGCTGACCCCAATCCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G15070.2 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 18
------------------------------------------------------------------------gtacaactttctgccgatttcgtattgacgatgaccattgagcattcaaatgttcac-tatatcttctgg-atattcctcatcggttgcactgag----atatgatatgaatgtatgcagATGTCTGCAGCTGCTTTTGCCAAAGGCCTGCTTGACCTAGAAGGACAGCTGACCCCAATCCTG
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gtatgggctatgttacactaaccttcctgcaatcaaaaggaatccttgacttcctgagtggttttgaaagcagttgttctccttgttatctaattatttatgtctaatattgag-attatgttgctaacctggataatctgtcaaaaataatatcatttatgaagaattttatatttgatctgtgttaacagATGTCTGCAGCTGCTTTTGCCAAAGGTCTTCTTGACCTTGAAGGGCAGCTCACACCAATCCTG
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 20
---------------------------------------------------------------gtacaactttctgccgatttcgtattgacgatgaccattgagcattcaaatgttcactatatcttctggatattcctcatcggttgcactgagatatgatatgaatgtatgcagATGTCTGCAGCTGCTTTTGCCAAAGGCCTGCTTGACCTAGAAGGACAGCTGACCCCAATCCTG
|||| ||| | | || | |||| | | | || | | | | | | || | ||| || | | || | |||| || || ||||||||||||||||||||||||||||| || ||||||||||| || ||||| || |||||||||
gtatggcctaaagttgtgctcaccttaatcataagaaggctaagtggttttcattattggttgctacatttttatacattttggaagtgtttgatgtctaggcattgtttataagcctaatttgtcctttgg-catcatatgtgagc--cattttttcatgacccatat-taaacagATGTCTGCAGCTGCTTTTGCCAAAGGTCTTCTTGACCTAGAGGGGCAGCTAACTCCAATCCTG
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 16
------------------------------------------------------------------------gtacaactttctgccgatttcgtattgacgatgaccattgagcattcaaatgttcac-tatatcttctgg-atattcctcatcggtt----gcactgagatatgatatgaatgtatgcagATGTCTGCAGCTGCTTTTGCCAAAGGCCTGCTTGACCTAGAAGGACAGCTGACCCCAATCCTG
| | || || |||| | | | | ||| ||| || | || | || |||| | | |||| || || | |||| | ||| |||||||||||||| |||||||||||||| || |||||||| ||||| ||||| || |||||||||
gtatgggctatgtcatactaaccttcctgcaataaaaaggaagcctcgacttcctgagtggttttgaaagcaattgctccccttgttatttaattatttatgtctaatgtcgag-attatgttgctaacctgcataatctgtcaaaaatagcatcatttatgaacaatttaatatttggtctctgttaacagATGTCTGCAGCCGCTTTTGCCAAAGGTCTTCTTGACCTTGAAGGGCAGCTAACACCAATCCTG
upper sequence: AT5G15070.2 (Arabidopsis thaliana), 3'ss of exon 19
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 16
--------------------------------------------------------------gtacaactttctgccgatttcgtattgacgatgaccattgagcat--tcaaatgttcactatatcttctggatattcctcatcggttgcactgagatatgatatgaatgtatgcagATGTCTGCAGCTGCTTTTGCCAAAGGCCTGCTTGACCTAGAAGGACAGCTGACCCCAATCCTG
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gtatggcctaagttgtgctcaccttaataaaaaaaaggctaagtggttttcattattggttgctacatttttatacattttgtaagtgtttgatgtctaggcagcatgtttataagcctaatttgtcctttgg-catcatatgtgagccattttttt-catgacccatgc-taaacagATGTCTGCAGCTGCTTTTGCCAAAGGTCTTCTTGACCTAGAGGGGCAGCTAACTCCGATCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatcttctggatattcctcatcggttgcactgagatatgatatgaatgtatgcagATGTCTGCAGCTGCTTTTGCCAAAGGCCTGCTTGACCTAGAAGGACAGCTGACCCCAATCCTG
atatgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaactttctgccgatttcgtattgacgatgaccattgagcattcaaatgttcactatatcttctggatattcctcatcggttgcactgagatatgatatgaatgtatgcagATGTCTGCAGCTGCTTTTGCCAAAGGCCTGCTTGACCTAGAAGGACAGCTGACCCCAATCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA