Sequence
atgc intronic sequence ATGC exonic sequence...ggtttcttgtttggtaattgaagggccatgtttgggagcggggggtacgaggtgggatcaaagagacaaagaatgatgcaatcaaatccctacttggcagTTGGCACTGGACCTACCAGCTTTCCACCTTTTGGCTATGCCGGCGGATTCCCAGTCGTTCGCCTCAGGGGTCTTCCCTTCAACTGCGCTGACATTGACAT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G66010.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G66010.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G22290.1 (Glycine max), 3'ss of exon 1
ggtttcttgtttggtaattgaagggc-catgtttgggagcggggggtacgaggtgggatcaaagagacaaagaatgatgcaatcaa-atccctacttggcagTTGGCACTGG--ACCTACCAGCTTTCCACCTTTTGGCTATGCCGGCGGATTCCCAGTCGTTCGCCTCAGGGGTCTTCCCTTCA-ACTGCGCTGACATTGACAT-
|| || || | | || | ||||| || | || | | | | | | || | | || | ||| | ||| | | | |||| | || || | || | || || || | | | || ||| ||| | | |
-aattaaaattaagtgtcaggggaaaacaaggttgggtttggctttattaacgtatgttgagtgggggatgttttgtttttttgggtatggaaatttgaagGGCAATGTTGGGAAGCGGGGGGGTTTCGGAC----GGGTACGA-GGTTGGCTCAAAGAGACAAAGAATGATGGAATCCAATCCATACTTCGCAGTGAGCAGCGGA
upper sequence: AT5G66010.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA09G33090.1 (Glycine max), 3'ss of exon 1
ggtttcttgtttggtaattgaagggccatgtttgggagcggggggtacgaggtgggatca--aagagacaaagaatgatgcaatcaaatccctacttggcagTT---GGCACTGGACCTACCAGCTTTCCACCTTTTGGCTATGCCG--GCGGATTCCCAGTCGTTCGCCTCAGGGGTCTTCCCTTCA-ACTGCGCTGACATTGACAT-
| | |||| || ||| |||| |||| | ||| | | || | || || | | | | ||| | || | | ||| || | | || | | || || || | | | || ||| ||| | | |
---------aataggaattaaaattaagtgtcagggaaaacagggttgggtttggctttattaacgtatgttgagtgggggatttttttttgggtatggaaatttgaagGGCAATGTTGGGAAGCGGGGGGGTTTCAGACGGGTACGAGGTTGGCTCAAAGAGACAAAGAATGATGGAATCCAATCCATACTTCGCAGTGAGCAGCGGA
upper sequence: AT5G66010.2 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv04s0044g00080.t01 (Vitis vinifera), 3'ss of exon 1
ggtttcttgtttggtaattgaagggcca--tgtttgggagcggggggtacgaggtgggatcaaagagacaaagaatgatgcaatcaaatccctacttggcagTTGGCACTGGACCTACCAGCTTTCCACCTTTTGGCTATGCCGGCGGATTCCCAGTCGTTC------------GCCTCAGGGGTCTTCCCTTCAACTGCGCTGACATTGACAT-
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---------------aataaagacattaggtgtcaggaaaacgtgggttgggtttggttttattaacaggttgagtgggggattttttttctgttttgggtatggataattgaagGGCAATGTTGGGAAGCGGGGGGGTTTCGGACGGGTACGAGATCGGCTCAAAGAGACAAAGAATGATGGAATCAAATCCCTACTTCGCAGTGAGCAGCAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacgaggtgggatcaaagagacaaagaatgatgcaatcaaatccctacttggcagTTGGCACTGGACCTACCAGCTTTCCACCTTTTGGCTATGCCGGCGGATTCCCAGTCGTTCGCCTCAGGGGTCTTCCCTTCAACTGCGCTGACATTGACAT
tccctactt CT-rich tract
aatcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtttcttgtttggtaattgaagggccatgtttgggagcggggggtacgaggtgggatcaaagagacaaagaatgatgcaatcaaatccctacttggcagTTGGCACTGGACCTACCAGCTTTCCACCTTTTGGCTATGCCGGCGGATTCCCAGTCGTTCGCCTCAGGGGTCTTCCCTTCAACTGCGCTGACATTGACAT
- - - -tgtttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gatcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatcaaa