Sequence
atgc intronic sequence ATGC exonic sequencegtattctataatctttcttgacttctccttggtgttttttatgagtcttgaaaattgtggcattataatgcttttgatttgtatgtttaaagatattttgtttcttttggaagtcaatttaaaggaaatatttgtttgtgttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G14760.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G14760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GRMZM2G012030_T01 (Zea mays), 3'ss of exon 1
gtattctataatctttcttgacttctccttggtgttttttatgagtcttgaaaattgtggcattataatgcttttgatttgtatgtttaaagatattttgtttcttttggaagtcaatttaaaggaaatatttgtttgtgttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
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---------------------------------------aactatgctagtcaatt-tgaagatataattgcaatgaaaagactgcatttacaagtgttgtctggtccatgaactaatt------gggtcttgttttgtg---gaacagACATGGACACAAAGGTTAAAGCAATGATCAAACTTATCAATGAAGATGCTGATTCTTTTGCAAGGAGAGCAGAGATGTACTACAAGAAACGTCCAGAGCT
upper sequence: AT4G14760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA11G00910.1 (Glycine max), 3'ss of exon 1
gtattctataatctttcttgacttctccttggtgttttttatgagtcttgaaaattgtggcattataatgcttttgatttgtatgtttaaagatattttgtttcttttggaagtcaatttaaaggaaatatttgtttgtgttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
| ||| ||| || || | | |||||| | | | | |||| || || | || | ||| | || || |||| | ||||||| ||| |||||||||| |||||||||||||||| || | || |||||||| |||||||| |||||||| ||||||| ||||| ||||| |||||
--------------------------------------taatgcgtc--aaagatgctataactataata-tacaagtgcgagtaattaaggaaatgagggtt--------gattgattcgtgtccatgcttctgttatgtttatgcagACATAGATACCAAAGTCAAAGCAATGATAAAGCTCATTGATGAGGAAGCAGATTCATTTGCAAGGAGGGCAGAAATGTACTATAAGAAGCGTCCGGAGCT
upper sequence: AT4G14760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA10G39070.1 (Glycine max), 3'ss of exon 1
gtattctataatctttcttgacttctccttggtgttttttatgagtcttgaaaattgtggcattataatgcttttgatttgtatgtttaaagatattttgtttcttttggaagtcaatttaaaggaaatatttgtttgtg-ttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
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---------------------------------------------tcatcaaaat-atagtgacata----tttacactaaaaaaattcataaaaatccatggttaggtaatctttaggtggtgttattaagtgtttatactttatgcagACATGGATGCCAAAGTAAAAGCAATGATCAAGCTTATTGAAGAGGATGCAGACTCATTTGCAAGAAGGGCAGAGATGTACTATAAGAAGCGGCCAGAACT
upper sequence: AT4G14760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G28750.1 (Glycine max), 3'ss of exon 1
gtattctataatctttcttgacttctccttggtgttttttatgagtcttgaaaattgtggcattataatgcttttgatttgtatgtttaaagatattttgtttcttttggaagtcaatttaaaggaaatatttgtttgtg-ttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
| | | | || | || ||| | | | || | | | | | | | | | | | | || ||||| | || | ||||||||||| ||||||| || ||||||| ||||| || |||| |||||||| || |||||||| |||||||| ||||||| ||||| || ||||| ||
--------------------------------------------------attttcatcaaaatacagtgatttacactaacaaaattcataaaaatccatggttcagtaatctttaagtggtgttattaagtgtttatactttatgcagACATGGATGCCAAAGTAAAAGCAATGATCAAGCTTATTGAAGAGGATGCAGACTCATTTGCAAGGAGGGCAGAGATGTACTATAAGAAGCGGCCAGAACT
upper sequence: AT4G14760.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv05s0020g03890.t01 (Vitis vinifera), 3'ss of exon 4
gtattctataatctttcttgacttctccttggtgttttttatgagtcttgaaaattgtggcattataatgcttttgatttgtatgtttaaagatattttgtttcttttggaagtcaatttaaaggaaatatttgtttgtgttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
|| || || | || | ||| || | || ||| || | | ||| || | ||| | || | || | | | ||| | |||| || ||| |||||| |||||| || ||||||| |||||||| |||| ||||||||||| |||||| | |||||||| ||||||| |||||| |||||||| ||
---------------------------------aattgttttggttgttta---ttg-atcagattgattttttcctcttttttttttcaacagccactgtattcactg------atcctatatgtattatctctttg------aatagATATGGATGTCAAAGTGAAAGCAATGATCAAGCTCATTGAAGAAGATGCAGATTCCTTTGCACGGAGGGCAGAAATGTACTACAAGAAGCGTCCAGAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgtttcttttggaagtcaatttaaaggaaatatttgtttgtgttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
aatttaaaggaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattctataatctttcttgacttctccttggtgttttttatgagtcttgaaaattgtggcattataatgcttttgatttgtatgtttaaagatattttgtttcttttggaagtcaatttaaaggaaatatttgtttgtgttgaaacagACATGGATTCCAAAGTCAAGACAATGATAAAGCTCATCGAAGCTGATGCAGATTCGTTTGCAAGAAGGGCAGACATGTACTTCAAGAAACGTCCAGAGCT
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT