Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtttctttagaagaaattagcatggctaatacggttgtcatcttcttatttacatctctggctgttctgctcaacttgtcgaatagGTTACAATTGTTGTAGTGGCAGTGCCTGAAGGGCTTCCTTTAGCTGTTACCTTGAC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G29900.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA13G00420.1 (Glycine max), 3'ss of exon 13
----------------------------------gtaagtgtttctttagaagaaattagcatggctaatacggttgtcatcttct-tatttacatctct--ggctgttctgctcaacttgtcgaatagGTTACAATTGTTGTAGTGGCAGTGCCTGAAGGGCTTCCTTTAGCTGTTACCTTGAC
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gtatgtgcattgataagtactagaatacctggacatatatgatccatttgcagata--aatattcataa-actttcatgagctttaacattaataactatgaggtgattgtaatgcgttgatcatgtagGTCACCATTGTGGTGATTGCAGTGCCTGAAGGGCTGCCTTTAGCAGTTACCTTAAC
upper sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 16
----------------------------------gtaagtgtttctttagaagaaattagcatggctaatacggttgtcatct-tcttatttacatctctggctgttctgctcaacttgtcgaatagGTTACAATTGTTGTAGTGGCAGTGCCTGAAGGGCTTCCTTTAGCTGTTACCTTGAC
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gtatgcgcattgataagtactagactgcctgaacatatatgatccctttgcagata--aatgttcataa-actttgacaagctataacattaataactgaggtggttgtaatccgttgaatatgcagGTCACCATTGTAGTGGTTGCAGTGCCTGAAGGGCTGCCTTTAGCAGTTACCTTAAC
upper sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 3'ss of exon 16
gtaagtgtttctttagaagaaattagcatggctaatacggtt---gtcatcttcttatttacatctctggctgttctgctcaacttgtcgaatagGTTACAATTGTTGTAGTGGCAGTGCCTGAAGGGCTTCCTTTAGCTGTTACCTTGAC
|| |||| ||| || | | || | | || | | || | || || | || | | ||||| |||||||| || || ||||||||||| ||||||||||||||||||||||| ||
-------------------gtatgtgcatttctattaagatacaggttttgtatttttctgaatttatgcctaat--gccagaaccattt--tagGTCACAATTGTAGTTGTTGCAGTGCCTGAGGGGCTTCCTTTAGCTGTTACCTTAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cggttgtcatcttcttatttacatctctggctgttctgctcaacttgtcgaatagGTTACAATTGTTGTAGTGGCAGTGCCTGAAGGGCTTCCTTTAGCTGTTACCTTGAC
ttcttattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtttctttagaagaaattagcatggctaatacggttgtcatcttcttatttacatctctggctgttctgctcaacttgtcgaatagGTTACAATTGTTGTAGTGGCAGTGCCTGAAGGGCTTCCTTTAGCTGTTACCTTGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT