Sequence
atgc intronic sequence ATGC exonic sequencegtaggcagatgtgcaaaatggcagatttattgacagtttgtattcttcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G19170.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G099452_T01 (Zea mays), 3'ss of exon 5
----------------------------------------------------------------------------gtaggcagatgtgcaaaatggcagatttattga--cagtttgtatt--cttcacgttcagagactaaaaggctaaata-atttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
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gtaatctatgatttcttcagcagtttctgaagggacatgcattttttggtgaatgttatagacacgcccatttacaattaacac-catgataatttgtgagttgagaaagccaatttgcttttgcttagttaccaatgtcttacttccttattttgtgtttgttagGGTAGCTGTCTACAAGGTTCTTTACAGGCTTTTCGGTGGTTATGTGGCTGATGTTGTGGCAGCTATTGATCAG
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G06740.1 (Glycine max), 3'ss of exon 4
gtaggcagatgtgcaaaatggcagattta---ttgacagtttgtattcttcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
||| | | | | ||| | |||| ||| | || | ||| ||| | || | | | | ||||||||||||||| |||||||| |||| | || |||||||| |||||||| ||||| ||||||||||||||||||
gtaaggaataataccct-tggttgttttaaaattgggaattgtagtcctttctgtt---gcattagacatttggtgtgtctttttcagGATTGCTGTCTACAAGGCAATTTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G00580.1 (Glycine max), 3'ss of exon 4
gtaggcagatgtgcaaaatggcagattta---ttgacagtttgtattcttcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
|| | | | | | | |||| || | || | ||| ||| | || | | || ||||||||||||||| |||||||| || || | || |||||||| |||||||| ||||| ||||||||||||||||||
gtgaggaataataaccctttgttgttttaaaactgggaattacagtcctttctgtt---gcattagacatttggtgtatccttttcagGATTGCTGTGTACAAGGCACTCTATAGACTGTTTGGAGGGTTTGTTGCAGATGTAGTTGCTGCAATTGATCAG
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G06640.1 (Glycine max), 3'ss of exon 5
gtaggcagatgtgcaaaatggcagatttattgacagtttgtattct--tcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
||| |||| | | | ||| |||| | | | | | || | | | || |||||||||||||| ||||| || || || | || |||||||| ||| |||||||||| ||||||||||||||||||
----------gtgaggaatgacgccccccctaattgttcaacttctgatgaaaaccgggaagtacttga-tgtttttttgtcttcagGATTGCTGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCTGATGTAGTTGCTGCAATTGATCAG
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA15G17830.1 (Glycine max), 3'ss of exon 4
gtaggcagatgtgcaaaatggcagatttattgacagtttgtattct--tcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
||| |||| | | | ||| || | | | | | |||| | | || ||||||||||| || ||||| || || || | || |||||||| ||| |||| ||||| ||||||||||||||||||
----------gtgaggaatgat-gcccccctaattgttcaacttttgattaaaaccgggaactacttgat--gttttttgtcttcagGATTGCAGTGTACAAAGCACTCTATAGACTCTTTGGAGGATTTATTGCAGATGTAGTTGCTGCAATTGATCAG
upper sequence: AT2G19170.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv11s0103g00550.t01 (Vitis vinifera), 3'ss of exon 5
------gtaggcaga-tgtgcaaaatggcagatttattgacagtttgtattcttcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
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gtgagggttaacaatctttgtatcttattcaaattactcagtatcatcctttcctctatttaaaaactatcttcctgtttggatgtattcagGGTTGCTGTATACAAGGCACTCTACCGGCTTTTTGGAGGTTTTGTTGCAGATGTGGTAGCTGCAATTGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgacagtttgtattcttcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
tttctttc CT-rich tract
taaataatttctttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggcagatgtgcaaaatggcagatttattgacagtttgtattcttcacgttcagagactaaaaggctaaataatttctttcagGATTGCTGTTTACAAGGCTCTTTACCGGCTTTTTGGAGGCTTTGTTGCTGATGTTGTTGCTGCAATTGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC