Sequence
atgc intronic sequence ATGC exonic sequence...atacaacgacagcactagcacaattcactaggctacatgtcctggtctgtggctatgtcttaaaattgtctctcaccactttctatttcgtttaatacagGGATTGGCTGGACATCATGGAAGAAAAGATGGTTTATTTTGACGCGTACTTCACTAGTTTTCTTTCGAAGTGACCCG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G24580.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GRMZM2G019153_T01 (Zea mays), 3'ss of exon 4
------------------------------------------------------------------------------------atacaacgacagcacta-gcacaattcactaggctacatgtcctggtctgtggctatgtcttaaaattgtctctcaccactttctatttcgttt--aatacagGGATTGGCTGGACATCATGGAAGAAAAGATGGTTTATTTTGACGCGTACTTCACTAGTTTTCTTTCGAAGTGACCCG
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gtttgttaactttgcttttgcaattaaattcagttcttcgtttgccattcatcttacacttttgtgaagcaatttttacttttactagaaaatacgcattatgttgaaatca--aggtttcaggacaatagcttggattcttacgaattattatttctttctttttcctgtttctctttgattaaagGAATTGGGTGGACGTCATGGAAGAAAAGATGGTTTATTTTGACACATACTTCGTTGGTTTTCTTTAGAAGCGACCCT
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA06G09860.1 (Glycine max), 3'ss of exon 4
atacaacgacagcactagcacaattcactaggctacatgtcctggtctgtggc-tatgtcttaaaattgtctctcaccactttctatttcgtttaatacagGGATTGGCTGGACATCATGGAAGAAAAGATGGTTTATTTTGACGCGTACTTCACTAGTTTTCTTTCGAAGTGACCCG
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-aatatgtataatgctggaatgcaaaactagatttctactcttggaagaaggagtttgtgaggtcattattattgcatagtgtgtatttattgacttgtagGAATTGGATGGACATCCTGGAAGAAAAGGTGGTTTATTTTAACACAGACTTCACTTGTTTTCTTCAGAAGTGATCCA
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA04G09780.1 (Glycine max), 3'ss of exon 1
atacaacgacagcactagcacaattcactaggct-acatgtcctggtctgtggctatgtcttaaaattgtctctcaccactttctatttcgtttaatacagGGATTGGCTGGACATCATGGAAGAAAAGATGGTTTATTTTGACGCGTACTTCACTAGTTTTCTTTCGAAGTGACCCG
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-aatatgtataatgctggaatgcaaaactagatttgtactattggaagaaggagtttgtgaggtcattattattgcctagtgtgtatttcttgacttgtagGAATTGGGTGGACATCCTGGAAGAAAAGGTGGTTTATTTTAACACAAACTTCACTTGTTTTCTTCAGAAGTGATCCA
upper sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 2
-atacaacgacagcactagcacaattcactaggcta-catgtcctggtctgtggctatgtcttaaaattgtctctcaccactttctatttcgtttaatacagGGATTGGCTGGACATCATGGAAGAAAAGATGGTTTATTTTGACGCGTACTTCACTAGTTTTCTTTCGAAGTGACCCG
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tgaggagtaaatttacttcaaggattctaagattcatcatgtacca--ttgttgtgaggaattgactatatctgaacttgctatttaattcttgttatatagGAATTGGATGGACATCATGGAAGAAAAGGTGGTTTATTTTAACACGTACATCGTTGGTTTTCTTTAGAAGTGATCCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtggctatgtcttaaaattgtctctcaccactttctatttcgtttaatacagGGATTGGCTGGACATCATGGAAGAAAAGATGGTTTATTTTGACGCGTACTTCACTAGTTTTCTTTCGAAGTGACCCG
ctttctatttcgttt CT-rich tract
tatgtcttaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atacaacgacagcactagcacaattcactaggctacatgtcctggtctgtggctatgtcttaaaattgtctctcaccactttctatttcgtttaatacagGGATTGGCTGGACATCATGGAAGAAAAGATGGTTTATTTTGACGCGTACTTCACTAGTTTTCTTTCGAAGTGACCCG
- acaacga
- - - - - - - - agcacaa