Sequence
atgc intronic sequence ATGC exonic sequencegttcatttctatctttgcacttctacatcctgatatgtgtaacactgtacatattataactatacatatgatttgtaacactgtagtatctttactggcatttaactatacatacatatgattcatgtgacaaattttccattaaagatgtcctttacattactgcagGATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G50240.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G50240.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G15750.1 (Glycine max), 3'ss of exon 6
gttcatttctatctttgcacttctacatcctgatatgtgtaacactgtacatattataactatacatatgatttgtaacactgtagtatctttactggcatttaactata-catacatatgattcatgtgacaaattttccattaaagatgtcctttacattactgcagGATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAG
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---------------------------------------------------------------------ttttcttgagtttaccctttccattcaaggaagaattcttagtttattaatgtctgtctttaagaatcttttgatcccaagccactggtccttgttgcagGATTCACTTGGTGGAAACAGCAAAACTGTCATGATAG
upper sequence: AT3G50240.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA17G18540.1 (Glycine max), 3'ss of exon 2
gttcatttctatctttgcacttctacatcctgatatgtgtaacactgtacatattataactatacatatgatttgtaacactgtagtatctttactggcatttaac-tatacatacatatgattcatgtgacaaattttccattaaagatgtcctttacattactgcagGATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAG
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------------------------------------------------------------tatatggg-ggtctgttagcttg----atattttcttgagtttaccctttccattcaaggaactcagaattcttagtttc--ttaatatcactggt--ccttgttgcagGATTCACTTGGTGGAAACAGCAAAACTGTCATGATAG
upper sequence: AT3G50240.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: PP1S237_18V6.1 (Physcomitrella patens), 3'ss of exon 6
gttcatttctatctttgcacttctacatcctgatatgtgtaacactgtacatattataactatacatatgatttgtaacactgtag--tatctttactggcatttaactatacatacatatgattcatgtgacaaattttccattaaagatgtcctttacattactgcagGATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAG
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----------------------------------------------gtatgaatt-tgtcaat---ttttgcttggaagtctgtacgtcaaggggacttggagtagttttcataggtttatggctgaaat--ttgattttgagtttctgagttctttctgctggttgcagGATTCTCTTGGGGGAAATAGTAGAACGGTCATGATTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|164121183|gb|ES181617.1|ES181617EST: ATACCGTGATAGTAAACTTACTCGGTTATTGCAG GATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAGC
genomic: ATACCGTGATAGTAAACTTACTCGGTTATTGCAGgttcatttct ... attactgcagGATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatatgattcatgtgacaaattttccattaaagatgtcctttacattactgcagGATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAG
aaattttccattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcatttctatctttgcacttctacatcctgatatgtgtaacactgtacatattataactatacatatgatttgtaacactgtagtatctttactggcatttaactatacatacatatgattcatgtgacaaattttccattaaagatgtcctttacattactgcagGATTCTCTTGGTGGAAATAGTAAAACAGTCATGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA