Sequence
atgc intronic sequence ATGC exonic sequence...atgaatattaagttcatgaacacaacaacagatttttggtgtatgcattttcaagtaaggacaaaaaagaagaaataattacggctgttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os02g53140.1 (Oryza sativa), 3'ss of exon 9
atgaatattaagttcatgaacacaacaacagatttttggtgtatgcattttcaagtaaggacaaaaaagaagaaataatta---cggctgttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
|| || || | | | | | || | | | | | | ||||| | || | | | || | ||| ||||| || |||| ||||||||||||||||| ||||||||||||| ||||||||||||||||| || ||||||||||| || |||||||||||||| || ||| ||| |
gtgcatttt---tctacctaggctatcccaacctcattgaatgcatagatggaagtatctgtattgcagtataccttatggaacctactgctgtttgtgctagGTCAAAGTGTGGTGCACAAAGCAAGAAGCAAGTGCCATCAATATTGATATGAAGGCCAATATTTGCTCTGTCAAATATAATCCTGGGTCGAGCCACTATG
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA14G05430.1 (Glycine max), 3'ss of exon 9
-atgaatattaagttcatgaacacaacaacagatttttggtgtatgcattttcaagtaaggacaaaaaa--gaagaaataattacggctgttgtttatg-gcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
|| || ||| | || ||| | || |||| | | | | | || | || | || | | | || |||| | || |||||| ||| | ||||| |||||||| ||||| ||||| | ||||| || ||||||||||| || |||| || ||||||||||||||||| || ||
tttggcattttggttagtcaattcaa----attttcttggcatggtatctgttgtatgattgaaagttattgatgtaaatgtaatgtctcttgtctttgagcagGTCAAAATTTGGTGTACAAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGCTGTGTCAAATATAATCCTGGATCTGGCAATTATA
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G43540.2 (Glycine max), 3'ss of exon 9
atgaatattaagttcatgaacacaacaacagatttttggtgt---atgcatttt-caagtaaggacaaaaaagaagaaataattacggctgttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
| ||| | | | || | | | || |||| || || || | | | | | || || | | | || || ||| |||||| ||| | |||||||| ||||| ||||| ||||| | ||||| || ||||||||||| || || | || ||||||||||||||||| || ||
-tttgcattttgctta--gtcaaatttaaattttcttggcgtggtatctgttgtatgattgaaagttactgagctaaatgtaatgtgtcttttctttg-agcagGTCAAAATTTGGTGCACTAATCAGGAAGCTAGTGTTCTAAATATAGACATGAAAGCAAACATATGTTGTGTCAAATATAATCCTGGATCTGGCAATTATA
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT2G32950.1 (Arabidopsis thaliana), 3'ss of exon 9
atgaatattaagttcatgaaca--caacaacagatttttggtgtatgcattt-tcaagtaaggacaaaaaagaagaaataattacggctgttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
| | | || |||| | | || | | | ||||| | | || | | | | | | || || |||| | ||||| ||||| ||||| |||||||| | || |||||||||||||| |||||||||||||||||||| || || | || || || |||||||| |||||| ||||
-tttaagtcaa-ttcactactagttaatcctcaaccatgcattattgcatctgttaaatcatgtctcata-gattaaccaattgtgctgtgtgtttgatccagGTTAAAGTTTGGTGCACGAGGCAGGAAGCAAGTGTGATTAATATTGATATGAAAGCAAACATATGTTGTGTCAAGTACAATCCTGGCTCAAGCAACTACA
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv10s0523g00030.t01 (Vitis vinifera), 3'ss of exon 9
atgaatattaagttcatgaa--cacaacaacagatttttggtgtatgcattttcaagtaaggacaaaaaagaagaaataattacggctgttgtttatg----gcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
| ||| || | | || | | || || |||||| | || | | | || ||||| | | | ||||| ||| | ||||||||||| || ||||| || || | || ||||| ||||||||||||||||| ||||| || |||||||||||||| ||| | ||||
------ttagagtatgtggaattttagcagtaagctaactctgattgatttttcattttagatgagtttcagtgtgttgtgtatctctgttctatgtatcaaacagGTCAAAATTTGGTGCACAAAGCAGGAAGCTAGCGTTCTTAACATTGACATGAAAGCAAATATTTGTTCGGTCAAGTATAATCCTGGATCTAGCATTTACG
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S86_153V6.2 (Physcomitrella patens), 3'ss of exon 9
------------------------------------------atgaatattaagttcatgaa--cacaacaacagatttttggtgtatgcattttcaagt-aaggacaaaaaagaagaaataattacggctg------------ttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
||| | || || | | | | ||| | | || | || || | ||||| || ||| || || ||| |||||| | ||||||||| | ||||| || | ||||| |||| ||||| ||||| |||||||||||||||||||||| || || || || || ||||||||| ||| |
gtgatttgttgaaatgttgtgattttatcactcaagtaactgatggaccttcgtttgacaaggccccttaaactggaaggtagtttttgggcttctgcatcaaggatcgaagcgaatgtgtagttgatcctgaagctttttgcattgtttcttgcagGTGAAGATATGGTGTACGAGGCAAGAGTCAAGCGTGATAAATATAGATATGAAAGCAAATATTTGCTGTGTGAAGTACAACCCAGGATCAAGCAACTATG
upper sequence: GRMZM2G104920_T02 (Zea mays), 3'ss of exon 8
lower sequence: PP1S135_17V6.1 (Physcomitrella patens), 3'ss of exon 9
-------------------------------------------atgaatattaagttcatgaaca----caacaacagatt-tttggtgtatgcattttcaagt---aaggacaaaaaagaagaaataattacggctgttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
||| | || | | ||| ||| || ||||| || | | ||| || | | | ||||| || |||| | | ||||||||| | |||||||| | ||||| |||| ||||| ||||| || ||||| ||||||||||||| || || |||||||||||||||||| ||| |
gtaacctgttgaaatctggtgaacttaatcactcttgtacttgatgcggttctgtttttcaagctttttcaaactcaggttatttggagttttccgcatcatgtttaatatgcggttgatccgaaatgttttta--tgttactgtttgcagGTGAAGATATGGTGCACGAGGCAAGAGTCAAGCGTGATAAATATAGACATGAAGGCAAATATTTGCTGTGTGAAGTATAATCCTGGATCAAGCAGCTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttcaagtaaggacaaaaaagaagaaataattacggctgttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
acaaaaaagaagaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaatattaagttcatgaacacaacaacagatttttggtgtatgcattttcaagtaaggacaaaaaagaagaaataattacggctgttgtttatggcagGTGAAAGTGTGGTGCACAAATCAAGAAGCAAGTGTGATCAATATTGATATGAAAGCAAATATTTGCTCGGTTAAATATAATCCTGGATCAAGCTTCTACG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT