Sequence
atgc intronic sequence ATGC exonic sequence...ttagaactgatggcacatgctataaaggacattatggggcttttatattaatatgtgtcttaaaaatttgattcatcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G23390.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G00490.2 (Glycine max), 3'ss of exon 4
ttagaactgatggcacatgctataaaggacattatggggcttttatattaatatgtgtcttaaaaatt--tgattcatcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
||| | | | | || | || |||| || || | || |||| | || | | || || || | | | || | ||||||||||||||||||||||||| ||| |||||||||||||||||||||||
-----cttgaagatat-tacaatggtgtactttatctggaaaacattaggttgtgattctttctacttactatcttatatgttatgtttc-tatattggaaggctagGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAA
upper sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G00490.1 (Glycine max), 3'ss of exon 4
ttagaactgatggcacatgctataaaggacattatggggcttttatattaatatgtgtcttaaaaatt--tgattcatcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
||| ||| | | | | || | || |||| || || | || |||| | || | | || || || | | | || | ||||||||||||||||||||||||| ||| |||||||||||||||||||||||
ttatccttgaagatat-tacaatggtgtactttatctggaaaacattaggttgtgattctttctacttactatcttatatgttatgtttc-tatattggaagGCTAGGCACTGGGATTCCTTCTACACTTTTTACAGGAACACAACTGATAACAA
upper sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G40290.2 (Glycine max), 3'ss of exon 4
ttagaactgatggcacatgctataaaggacatta--tggggcttttatattaatatgtgtcttaaaaatttgattcatcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
||| ||| | | | | || | || ||| ||| || | | | | | | | | | | || || | ||| | | ||||||||||||||||||||||||| ||| |||||||||||||||||||||||
ttatccttgaagatat-tacaatggtgtactttagctggaaaaatttaggttgtgtttctttctacttgctatcttaaacgttatgtttt-tgtatcggaagGCTAGGCACTGGGATTCCTTCTACTCTTTTTACAGGAACACAACTGATAACAA
upper sequence: AT2G23390.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv12s0035g01750.t01 (Vitis vinifera), 3'ss of exon 8
ttagaactgatggcacatgctataaaggacattatggggcttttatattaatatgtgtcttaaaaatttgatt-----catcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
| || | || | | | | || || | || | | || | | || ||| ||| | || | || |||||||| ||||||||||||||| || | ||||| |||||||| |||||||||||
-----ctttatagatcacatcagtagacttgtgacttggtttgcttcttttgccctatgttgatggtcctcttactgttatcttttcatggttatctgttggcagGCTAAGCACTGGGATTCCTTTTACAAGTTCTATAGGAACACCACTGATAACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattaatatgtgtcttaaaaatttgattcatcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
tgttttt CT-rich tract
ttaaaaatttgattca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagaactgatggcacatgctataaaggacattatggggcttttatattaatatgtgtcttaaaaatttgattcatcgtttgtgcctaatgtttttgcagGCTAGGCACTGGGATTCCTTCTATGATTTCTACAGGAACACAACTGATAACAA
- - - - - - -cacatgc
- - - - - - - - - - - - aaggaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttaaaaa