Sequence
atgc intronic sequence ATGC exonic sequencegtattaccctactgcaatttggtttttgaatgaaagaccctactacaattattgtatatttaccatcatcaaacttattaggtaaagatcataactagtaaaatagatggaagagctgtccataaacagaactgttttgtgtttttaatcttttccttggattaattacatagtgagtgcatgttttctttgctaaagGTTTTTTGTTCAAAAAACGCGCAAAAGCAAATGATTGGAGCAAGCGATGGTTTGTTCTAAATGAGAAAAGTGGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 14
lower sequence: LOC_Os08g32920.1 (Oryza sativa), 3'ss of exon 14
gtattaccctactgcaatttggtttttgaatgaaagaccctactacaattattgtatatttaccat-catcaaacttattaggtaaagatcataactagtaaaatagatggaagagctgtccataaacagaactgttttgtgtttttaatcttttccttggattaattacatagtgagtgcatgttttctttgctaaagGTTTTTTGTTCAAAAAACGCGCAAAAGCAAATGATTGGAGCAAGCGATGGTTTGTTCTAAATGAGAAAAGTGGAAAG
| | || || | | | | | | | ||| | |||||| | | || | | | |||| || ||| || ||| | || || | | ||| |||| || || || ||| ||| ||||| | ||| || | |||||||| | ||||||||||| |||||||||||||| ||||| || || ||||||||||||||||||| ||||||||||
----------------gtatagtcttaggacatatggc---agtttgtttaaagcttatttattggacgtagaaatagtca---aaagtatatgcctattagcataatttact---ctaatttaaatctatgttttttaaagtttccaacaggtttattttcttattta-atagt-----tttttttcctatatcaaagGTTTCCTTTTCAAAAAACGTGCAAAAGCAAATGACTGGAGTAACCGCTGGTTTGTTCTAAATGAGAGAAGTGGAAAG
upper sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 14
lower sequence: GLYMA12G37100.1 (Glycine max), 3'ss of exon 14
gtattaccctactgcaatttggtttttgaatgaaagaccctactacaattattgtatatttaccatcatcaaacttattaggtaaagatcataactagtaaaatagatggaagagctgtccataaacagaactgttttgtgtttttaatcttttccttggattaattacatagtgagtgcatgttttctttgctaaagGTTTTTTGTTCAAAAAACGCGCAAAAGCAAATGATTGGAGCAAGCGATGGTTTGTTCTAAATGAGAAAAGTGGAAAG
|| | || || || || || ||| || | || | | | ||| || | || || || || | | | | | | || ||||| ||| |||||||| || ||| | |||||| | |||| |||||||| |||||||||||| ||||||||||| | ||||||
-------------------------------------------------------------------------------------agctaatgcttaaatgcatgaatttggaagttgta-atgtgccaaagta---tatatttcaaaattatt-----aataaacta-aaactacttttctttattgtttgc---agGATTTTTGTTAAAGAAAAGTGCAAAAACTAATGGTTGGAGCAGGCGATGGTTTGTGCTAAATGAGAAGACAGGAAAG
upper sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 14
lower sequence: AT1G10290.1 (Arabidopsis thaliana), 3'ss of exon 14
gtattaccctactgcaatttggtttttgaatgaaagaccctactacaattattgtatatttaccatcatcaaacttattaggtaaagatcataactagtaaaatagatggaagagctgtccataaacagaactgttttgtgtttttaatct--tttccttggattaattac--------atagtgagtgcatgttttctttgctaaagGTTTTTTGTTCAAAAAACGCGCAAAAGCAAATGATTGGAGCAAGCGATGGTTTGTTCTAAATGAGAAAAGTGGAAAG
|| | || | | ||| || ||| | || || || || | ||| | | ||| | | | | | | || | | ||| || | || ||| | |||||| |||||| ||||| | ||||||||||||||| |||||||||| |||||||
-----------------------------------------------------------------------------------------------------------tgcatgatttcttcatgtctttttcttctttatcacttaaaactaacttgacaaaactaacttccaaggtagataacaaatacttactcttttcatttagGGTACTTAATG-AAGAAAAGTGCAAAAACAAATGGGTGGAGTAGGCGATGGTTTGTTCTGAATGAGAAAACTGGAAAG
upper sequence: GRMZM2G485898_T02 (Zea mays), 3'ss of exon 14
lower sequence: Vv12s0035g01740.t01 (Vitis vinifera), 3'ss of exon 14
------gtattaccctactgcaatttggtttttg-aatgaaagaccctactacaat-tattgtatatttaccatcatcaaacttattaggtaaagat------cataactagtaaaatagatggaagagctgtccataaacagaactgttttgtgtttttaatcttttccttggattaattacatagtgagtgcatgttttctttgctaaagGTTTTTTGTTCAAAAAACGCGCAAAAGCAAATGATTGGAGCAAGCGATGGTTTGTTCTAAATGAGAAAAGTGGAAAG
| | | | ||| ||| ||||| | | | || | | || | | || | | ||| || || || | | | ||| | |||| | | | |||| || | ||||| || || | |||| | ||| ||||| | | || | | |||| | || ||| ||||| || || | | |||| ||| |||||| ||||| | ||||||||||||| |||||||||||||| | |||
gtgcttgagcgaacaatcagcattttaacttttgtggttctaaaaaatatggaattgtactatctacctgcagtcaacag--ttgttggacatgccttctctacatcatcagtagagt-gttggagaaggcttgcataa----------ttggtatatttatttatttt-----attaacttgtcatcgattttttatttttat--ctgcagGATTTTTATTGAAGAGAAGCGCCAAAACAAATGGATGGAGTAGGCGATGGTTTGTTTTAAATGAGAAAAGTAGTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaatcttttccttggattaattacatagtgagtgcatgttttctttgctaaagGTTTTTTGTTCAAAAAACGCGCAAAAGCAAATGATTGGAGCAAGCGATGGTTTGTTCTAAATGAGAAAAGTGGAAAG
gattaat putative branch site (score: 3)
ttttctttgct putative PPT
attaattacatagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattaccctactgcaatttggtttttgaatgaaagaccctactacaattattgtatatttaccatcatcaaacttattaggtaaagatcataactagtaaaatagatggaagagctgtccataaacagaactgttttgtgtttttaatcttttccttggattaattacatagtgagtgcatgttttctttgctaaagGTTTTTTGTTCAAAAAACGCGCAAAAGCAAATGATTGGAGCAAGCGATGGTTTGTTCTAAATGAGAAAAGTGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA