Sequence
atgc intronic sequence ATGC exonic sequencegtgagtggatactacacattttagttttatggcttggagtccagaacctccgcatgtttctaaagctatatattgattttttgttttggttgccatagGTACCGGGGAAAGAGGATGAGGATCGACTATTTTCTGGTCTCTGAACAACTCAAAGACCGTATAGTTTCTTGTAAGATGCACGGTCGTGGGATAGAACTT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G48425.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G48425.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G170291_T04 (Zea mays), 3'ss of exon 7
-------------gtgagtggatactacacattttagttttatggcttggagtccagaac-ctccgcatgttt--ctaaagctatatattgattttttgttttggttg----------------ccatagGTACCGGGGAAAGAGGATGAGGATCGACTATTTTCTGGTCTCTGAACAACTCAAAGACCGTATAGTTTCTTGTAAGATGCACGGTCGTGGGATAGAACTT
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tacagtcctcaacataaagtgtaaacaaacatgtggcctttgaaagtgtgagacgaatacacactgcatgcatacttgaatgcgtcttttatctttttagTGAGATTAACTTCTCTGCATATGCCTCTAGGTACCGAGGAAAGAGAATGAGGATCGACTACTTCCTTGTTTCGGAACAGTTAAAGGACAGAATAGTTTCA------------------------------
upper sequence: AT3G48425.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G170291_T02 (Zea mays), 3'ss of exon 7
--gtgag--tggatactacacattttagttttatggcttggagtccagaac-ctccgcatgtttctaaagctatatattgattttttgttttggttgccatagGTACCGGGGAAAGAGGATGAGGATCGACTATTTTCTGGTCTCTGAACAACTCAAAGACCGTATAGTTTCTTGTAAGATGCACGGTCGTGGGATAGAACTT
||| | || | | | | || || | | ||| | | | | | | || | || | || | || | | | ||||||||| |||||||| |||||||||||||| || || || || ||||| | || ||| | |||||||| ||| | ||||| || ||||| || ||| |
atgtggcctttgaaagtgtgagacgaatacacactgcatgcatacttgaatgcgtcttttatctttttagtgagat-taacttctctgcatatgcctc--tagGTACCGAGGAAAGAGAATGAGGATCGACTACTTCCTTGTTTCGGAACAGTTAAAGGACAGAATAGTTTCATGTGAAATGCATGGCCGTGGCATTGAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacctccgcatgtttctaaagctatatattgattttttgttttggttgccatagGTACCGGGGAAAGAGGATGAGGATCGACTATTTTCTGGTCTCTGAACAACTCAAAGACCGTATAGTTTCTTGTAAGATGCACGGTCGTGGGATAGAACTT
taaagctatatattga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtggatactacacattttagttttatggcttggagtccagaacctccgcatgtttctaaagctatatattgattttttgttttggttgccatagGTACCGGGGAAAGAGGATGAGGATCGACTATTTTCTGGTCTCTGAACAACTCAAAGACCGTATAGTTTCTTGTAAGATGCACGGTCGTGGGATAGAACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG